Mercurial > repos > bgruening > svm_classifier
annotate main_macros.xml @ 12:ada7bb28fe13 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
author | bgruening |
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date | Sun, 01 Jul 2018 03:18:53 -0400 |
parents | 6b31f5167cf8 |
children | 78c664cc1841 |
rev | line source |
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0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
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1 <macros> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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2 <token name="@VERSION@">0.9</token> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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3 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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4 <token name="@COLUMNS_FUNCTION@"> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
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5 def read_columns(f, c=None, c_option='by_index_number', return_df=False, **args): |
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58ed11d6296e
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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6 data = pandas.read_csv(f, **args) |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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7 if c_option == 'by_index_number': |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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8 cols = list(map(lambda x: x - 1, c)) |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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9 data = data.iloc[:,cols] |
11
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
parents:
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10 if c_option == 'all_but_by_index_number': |
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
parents:
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11 cols = list(map(lambda x: x - 1, c)) |
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
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12 data.drop(data.columns[cols], axis=1, inplace=True) |
12
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
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13 if c_option == 'by_header_name': |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
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14 cols = [e.strip() for e in c.split(',')] |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
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15 data = data[cols] |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
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16 if c_option == 'all_but_by_header_name': |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
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17 cols = [e.strip() for e in c.split(',')] |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
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18 data.drop(cols, axis=1, inplace=True) |
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75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
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19 y = data.values |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
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20 if return_df: |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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21 return y, data |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
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22 else: |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
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23 return y |
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9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
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24 return y |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
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25 </token> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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26 |
9
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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27 ## generate an instance for one of sklearn.feature_selection classes |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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diff
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28 <token name="@FEATURE_SELECTOR_FUNCTION@"> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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29 def feature_selector(inputs): |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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30 selector = inputs["selected_algorithm"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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31 selector = getattr(sklearn.feature_selection, selector) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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diff
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32 options = inputs["options"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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33 |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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34 if inputs['selected_algorithm'] == 'SelectFromModel': |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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35 if not options['threshold'] or options['threshold'] == 'None': |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
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36 options['threshold'] = None |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
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37 if 'extra_estimator' in inputs and inputs['extra_estimator']['has_estimator'] == 'no_load': |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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38 fitted_estimator = pickle.load(open("inputs['extra_estimator']['fitted_estimator']", 'r')) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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39 new_selector = selector(fitted_estimator, prefit=True, **options) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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40 else: |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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41 estimator=inputs["estimator"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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42 if inputs["extra_estimator"]["has_estimator"]=='no': |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
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43 estimator=inputs["extra_estimator"]["new_estimator"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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44 estimator=eval(estimator.replace('__dq__', '"').replace("__sq__","'")) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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45 new_selector = selector(estimator, **options) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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46 |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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47 elif inputs['selected_algorithm'] in ['RFE', 'RFECV']: |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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48 if 'scoring' in options and (not options['scoring'] or options['scoring'] == 'None'): |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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49 options['scoring'] = None |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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50 estimator=inputs["estimator"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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51 if inputs["extra_estimator"]["has_estimator"]=='no': |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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52 estimator=inputs["extra_estimator"]["new_estimator"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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53 estimator=eval(estimator.replace('__dq__', '"').replace("__sq__","'")) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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54 new_selector = selector(estimator, **options) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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55 |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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56 elif inputs['selected_algorithm'] == "VarianceThreshold": |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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57 new_selector = selector(**options) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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diff
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58 |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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59 else: |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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60 score_func = inputs["score_func"] |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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61 score_func = getattr(sklearn.feature_selection, score_func) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
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62 new_selector = selector(score_func, **options) |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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63 |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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64 return new_selector |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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65 </token> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
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66 |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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67 <xml name="python_requirements"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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68 <requirements> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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69 <requirement type="package" version="2.7">python</requirement> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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70 <requirement type="package" version="0.19.1">scikit-learn</requirement> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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71 <requirement type="package" version="0.22.0">pandas</requirement> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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72 <yield /> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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73 </requirements> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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74 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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75 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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76 <xml name="macro_stdio"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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77 <stdio> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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78 <exit_code range="1:" level="fatal" description="Error occurred. Please check Tool Standard Error"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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79 </stdio> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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80 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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81 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
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82 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
83 <!--Generic interface--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
84 <xml name="train_loadConditional" token_train="tabular" token_data="tabular" token_model="txt"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
85 <conditional name="selected_tasks"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
86 <param name="selected_task" type="select" label="Select a Classification Task"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
87 <option value="train" selected="true">Train a model</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
88 <option value="load">Load a model and predict</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
89 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
90 <when value="load"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff
changeset
|
91 <param name="infile_model" type="data" format="@MODEL@" label="Models" help="Select a model file."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
92 <param name="infile_data" type="data" format="@DATA@" label="Data (tabular)" help="Select the dataset you want to classify."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
93 <conditional name="prediction_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
94 <param name="prediction_option" type="select" label="Select the type of prediction"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
95 <option value="predict">Predict class labels</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
96 <option value="advanced">Include advanced options</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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97 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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98 <when value="predict"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
|
99 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
100 <when value="advanced"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
|
101 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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102 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
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103 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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104 <when value="train"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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|
105 <param name="infile_train" type="data" format="@TRAIN@" label="Training samples (tabular)"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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106 <conditional name="selected_algorithms"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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107 <yield /> |
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108 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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109 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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110 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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111 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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112 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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113 <xml name="sl_Conditional" token_train="tabular" token_data="tabular" token_model="txt"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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114 <conditional name="selected_tasks"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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115 <param name="selected_task" type="select" label="Select a Classification Task"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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116 <option value="train" selected="true">Train a model</option> |
9a9396e5d153
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117 <option value="load">Load a model and predict</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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118 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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119 <when value="load"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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120 <param name="infile_model" type="data" format="@MODEL@" label="Models" help="Select a model file."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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121 <param name="infile_data" type="data" format="@DATA@" label="Data (tabular)" help="Select the dataset you want to classify."/> |
5
ee7f2a4bafc7
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 35fa73d6e9ba8f0789ddfb743d893d950a68af02
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122 <param name="header" type="boolean" optional="True" truevalue="booltrue" falsevalue="boolfalse" checked="False" label="Does the dataset contain header:" /> |
0
9a9396e5d153
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123 <conditional name="prediction_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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124 <param name="prediction_option" type="select" label="Select the type of prediction"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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125 <option value="predict">Predict class labels</option> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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126 <option value="advanced">Include advanced options</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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127 </param> |
9a9396e5d153
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128 <when value="predict"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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129 </when> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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130 <when value="advanced"> |
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131 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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132 </conditional> |
9a9396e5d153
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133 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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134 <when value="train"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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135 <conditional name="selected_algorithms"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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136 <yield /> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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137 </conditional> |
9a9396e5d153
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138 </when> |
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139 </conditional> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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140 </xml> |
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141 |
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142 <xml name="advanced_section"> |
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143 <section name="options" title="Advanced Options" expanded="False"> |
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144 <yield /> |
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145 </section> |
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146 </xml> |
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147 |
9a9396e5d153
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148 |
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149 <!--Generalized Linear Models--> |
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150 <xml name="loss" token_help=" " token_select="false"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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151 <param argument="loss" type="select" label="Loss function" help="@HELP@"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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152 <option value="squared_loss" selected="@SELECT@">squared loss</option> |
9a9396e5d153
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153 <option value="huber">huber</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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154 <option value="epsilon_insensitive">epsilon insensitive</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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155 <option value="squared_epsilon_insensitive">squared epsilon insensitive</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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156 <yield/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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157 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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158 </xml> |
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159 |
9a9396e5d153
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160 <xml name="penalty" token_help=" "> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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161 <param argument="penalty" type="select" label="Penalty (regularization term)" help="@HELP@"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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162 <option value="l2" selected="true">l2</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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163 <option value="l1">l1</option> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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164 <option value="elasticnet">elastic net</option> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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165 <option value="none">none</option> |
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166 <yield/> |
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167 </param> |
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168 </xml> |
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169 |
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170 <xml name="l1_ratio" token_default_value="0.15" token_help=" "> |
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171 <param argument="l1_ratio" type="float" value="@DEFAULT_VALUE@" label="Elastic Net mixing parameter" help="@HELP@"/> |
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172 </xml> |
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173 |
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174 <xml name="epsilon" token_default_value="0.1" token_help="Used if loss is ‘huber’, ‘epsilon_insensitive’, or ‘squared_epsilon_insensitive’. "> |
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175 <param argument="epsilon" type="float" value="@DEFAULT_VALUE@" label="Epsilon (epsilon-sensitive loss functions only)" help="@HELP@"/> |
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176 </xml> |
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177 |
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178 <xml name="learning_rate_s" token_help=" " token_selected1="false" token_selected2="false"> |
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179 <param argument="learning_rate" type="select" optional="true" label="Learning rate schedule" help="@HELP@"> |
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180 <option value="optimal" selected="@SELECTED1@">optimal</option> |
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181 <option value="constant">constant</option> |
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182 <option value="invscaling" selected="@SELECTED2@">inverse scaling</option> |
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183 <yield/> |
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184 </param> |
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185 </xml> |
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186 |
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187 <xml name="eta0" token_default_value="0.0" token_help="Used with ‘constant’ or ‘invscaling’ schedules. "> |
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188 <param argument="eta0" type="float" value="@DEFAULT_VALUE@" label="Initial learning rate" help="@HELP@"/> |
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189 </xml> |
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190 |
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191 <xml name="power_t" token_default_value="0.5" token_help=" "> |
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192 <param argument="power_t" type="float" value="@DEFAULT_VALUE@" label="Exponent for inverse scaling learning rate" help="@HELP@"/> |
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193 </xml> |
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194 |
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195 <xml name="normalize" token_checked="false" token_help=" "> |
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196 <param argument="normalize" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="Normalize samples before training" help=" "/> |
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197 </xml> |
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198 |
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199 <xml name="copy_X" token_checked="true" token_help=" "> |
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200 <param argument="copy_X" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="Use a copy of samples" help="If false, samples would be overwritten. "/> |
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201 </xml> |
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202 |
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203 <xml name="ridge_params"> |
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204 <expand macro="normalize"/> |
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205 <expand macro="alpha" default_value="1.0"/> |
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206 <expand macro="fit_intercept"/> |
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207 <expand macro="max_iter" default_value=""/> |
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208 <expand macro="tol" default_value="0.001" help_text="Precision of the solution. "/> |
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209 <!--class_weight--> |
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210 <expand macro="copy_X"/> |
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211 <param argument="solver" type="select" value="" label="Solver to use in the computational routines" help=" "> |
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212 <option value="auto" selected="true">auto</option> |
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213 <option value="svd">svd</option> |
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214 <option value="cholesky">cholesky</option> |
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215 <option value="lsqr">lsqr</option> |
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216 <option value="sparse_cg">sparse_cg</option> |
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217 <option value="sag">sag</option> |
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218 </param> |
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219 <expand macro="random_state"/> |
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220 </xml> |
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221 |
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222 <!--Ensemble methods--> |
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223 <xml name="n_estimators" token_default_value="10" token_help=" "> |
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224 <param argument="n_estimators" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of trees in the forest" help="@HELP@"/> |
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225 </xml> |
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226 |
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227 <xml name="max_depth" token_default_value="" token_help=" "> |
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228 <param argument="max_depth" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Maximum depth of the tree" help="@HELP@"/> |
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229 </xml> |
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230 |
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231 <xml name="min_samples_split" token_type="integer" token_default_value="2" token_help=" "> |
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232 <param argument="min_samples_split" type="@TYPE@" optional="true" value="@DEFAULT_VALUE@" label="Minimum number of samples required to split an internal node" help="@HELP@"/> |
0
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233 </xml> |
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234 |
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235 <xml name="min_samples_leaf" token_type="integer" token_default_value="1" token_label="Minimum number of samples in newly created leaves" token_help=" "> |
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236 <param argument="min_samples_leaf" type="@TYPE@" optional="true" value="@DEFAULT_VALUE@" label="@LABEL@" help="@HELP@"/> |
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237 </xml> |
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238 |
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239 <xml name="min_weight_fraction_leaf" token_default_value="0.0" token_help=" "> |
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240 <param argument="min_weight_fraction_leaf" type="float" optional="true" value="@DEFAULT_VALUE@" label="Minimum weighted fraction of the input samples required to be at a leaf node" help="@HELP@"/> |
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241 </xml> |
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242 |
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243 <xml name="max_leaf_nodes" token_default_value="" token_help=" "> |
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244 <param argument="max_leaf_nodes" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Maximum number of leaf nodes in best-first method" help="@HELP@"/> |
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245 </xml> |
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246 |
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247 <xml name="min_impurity_decrease" token_default_value="0" token_help=" "> |
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248 <param argument="min_impurity_decrease" type="float" value="@DEFAULT_VALUE@" optional="true" label="The threshold value of impurity for stopping node splitting" help="@HELP@"/> |
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249 </xml> |
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250 |
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251 <xml name="bootstrap" token_checked="true" token_help=" "> |
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252 <param argument="bootstrap" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="@CHECKED@" label="Use bootstrap samples for building trees." help="@HELP@"/> |
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253 </xml> |
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254 |
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255 <xml name="criterion" token_help=" "> |
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256 <param argument="criterion" type="select" label="Function to measure the quality of a split" help=" "> |
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257 <option value="gini" selected="true">Gini impurity</option> |
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258 <option value="entropy">Information gain</option> |
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259 <yield/> |
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260 </param> |
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261 </xml> |
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262 |
5
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263 <xml name="criterion2" token_help=""> |
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264 <param argument="criterion" type="select" label="Function to measure the quality of a split" > |
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265 <option value="mse">mse - mean squared error</option> |
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266 <option value="mae">mae - mean absolute error</option> |
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267 <yield/> |
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268 </param> |
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269 </xml> |
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270 |
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271 <xml name="oob_score" token_checked="false" token_help=" "> |
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272 <param argument="oob_score" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="Use out-of-bag samples to estimate the generalization error" help="@HELP@"/> |
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273 </xml> |
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274 |
5
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275 <xml name="max_features"> |
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276 <conditional name="select_max_features"> |
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277 <param argument="max_features" type="select" label="max_features"> |
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278 <option value="auto" selected="true">auto - max_features=n_features</option> |
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279 <option value="sqrt">sqrt - max_features=sqrt(n_features)</option> |
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280 <option value="log2">log2 - max_features=log2(n_features)</option> |
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281 <option value="number_input">I want to type the number in or input None type</option> |
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282 </param> |
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283 <when value="auto"> |
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284 </when> |
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285 <when value="sqrt"> |
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286 </when> |
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287 <when value="log2"> |
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288 </when> |
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289 <when value="number_input"> |
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290 <param name="num_max_features" type="float" value="" optional="true" label="Input max_features number:" help="If int, consider the number of features at each split; If float, then max_features is a percentage and int(max_features * n_features) features are considered at each split."/> |
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291 </when> |
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292 </conditional> |
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293 </xml> |
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294 |
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295 <xml name="verbose" token_default_value="0" token_help="If 1 then it prints progress and performance once in a while. If greater than 1 then it prints progress and performance for every tree."> |
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296 <param argument="verbose" type="integer" value="@DEFAULT_VALUE@" optional="true" label="Enable verbose output" help="@HELP@"/> |
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297 </xml> |
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298 |
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299 <xml name="learning_rate" token_default_value="1.0" token_help=" "> |
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300 <param argument="learning_rate" type="float" optional="true" value="@DEFAULT_VALUE@" label="Learning rate" help="@HELP@"/> |
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301 </xml> |
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302 |
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303 <xml name="subsample" token_help=" "> |
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304 <param argument="subsample" type="float" value="1.0" optional="true" label="The fraction of samples to be used for fitting the individual base learners" help="@HELP@"/> |
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305 </xml> |
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306 |
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307 <xml name="presort"> |
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308 <param argument="presort" type="select" label="Whether to presort the data to speed up the finding of best splits in fitting" > |
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309 <option value="auto" selected="true">auto</option> |
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310 <option value="true">true</option> |
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311 <option value="false">false</option> |
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312 </param> |
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313 </xml> |
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314 |
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315 <!--Parameters--> |
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316 <xml name="tol" token_default_value="0.0" token_help_text="Early stopping heuristics based on the relative center changes. Set to default (0.0) to disable this convergence detection."> |
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317 <param argument="tol" type="float" optional="true" value="@DEFAULT_VALUE@" label="Tolerance" help="@HELP_TEXT@"/> |
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318 </xml> |
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319 |
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320 <xml name="n_clusters" token_default_value="8"> |
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321 <param argument="n_clusters" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of clusters" help=" "/> |
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322 </xml> |
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323 |
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324 <xml name="fit_intercept" token_checked="true"> |
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325 <param argument="fit_intercept" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="Estimate the intercept" help="If false, the data is assumed to be already centered."/> |
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326 </xml> |
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327 |
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328 <xml name="n_jobs" token_default_value="1" token_label="The number of jobs to run in parallel for both fit and predict"> |
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329 <param argument="n_jobs" type="integer" value="@DEFAULT_VALUE@" optional="true" label="@LABEL@" help="If -1, then the number of jobs is set to the number of cores"/> |
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330 </xml> |
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331 |
0
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332 <xml name="n_iter" token_default_value="5" token_help_text="The number of passes over the training data (aka epochs). "> |
9a9396e5d153
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333 <param argument="n_iter" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of iterations" help="@HELP_TEXT@"/> |
9a9396e5d153
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334 </xml> |
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335 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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336 <xml name="shuffle" token_checked="true" token_help_text=" " token_label="Shuffle data after each iteration"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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337 <param argument="shuffle" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="@LABEL@" help="@HELP_TEXT@"/> |
9a9396e5d153
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338 </xml> |
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339 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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340 <xml name="random_state" token_default_value="" token_help_text="Integer number. The seed of the pseudo random number generator to use when shuffling the data. A fixed seed allows reproducible results."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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341 <param argument="random_state" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Random seed number" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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342 </xml> |
9a9396e5d153
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343 |
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344 <xml name="warm_start" token_checked="true" token_help_text="When set to True, reuse the solution of the previous call to fit as initialization,otherwise, just erase the previous solution."> |
9a9396e5d153
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345 <param argument="warm_start" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="@CHECKED@" label="Perform warm start" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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346 </xml> |
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347 |
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348 <xml name="C" token_default_value="1.0" token_help_text="Penalty parameter C of the error term."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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349 <param argument="C" type="float" optional="true" value="@DEFAULT_VALUE@" label="Penalty parameter" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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350 </xml> |
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351 |
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352 <!--xml name="class_weight" token_default_value="" token_help_text=""> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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353 <param argument="class_weight" type="" optional="true" value="@DEFAULT_VALUE@" label="" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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354 </xml--> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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355 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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356 <xml name="alpha" token_default_value="0.0001" token_help_text="Constant that multiplies the regularization term if regularization is used. "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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357 <param argument="alpha" type="float" optional="true" value="@DEFAULT_VALUE@" label="Regularization coefficient" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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358 </xml> |
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359 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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360 <xml name="n_samples" token_default_value="100" token_help_text="The total number of points equally divided among clusters."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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361 <param argument="n_samples" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of samples" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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362 </xml> |
9a9396e5d153
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363 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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364 <xml name="n_features" token_default_value="2" token_help_text="Number of different numerical properties produced for each sample."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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365 <param argument="n_features" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of features" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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366 </xml> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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367 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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368 <xml name="noise" token_default_value="0.0" token_help_text="Floating point number. "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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369 <param argument="noise" type="float" optional="true" value="@DEFAULT_VALUE@" label="Standard deviation of the Gaussian noise added to the data" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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370 </xml> |
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371 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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372 <xml name="C" token_default_value="1.0" token_help_text="Penalty parameter C of the error term. "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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373 <param argument="C" type="float" optional="true" value="@DEFAULT_VALUE@" label="Penalty parameter" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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374 </xml> |
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375 |
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376 <xml name="max_iter" token_default_value="300" token_label="Maximum number of iterations per single run" token_help_text=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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377 <param argument="max_iter" type="integer" optional="true" value="@DEFAULT_VALUE@" label="@LABEL@" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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378 </xml> |
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379 |
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380 <xml name="n_init" token_default_value="10" > |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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381 <param argument="n_init" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Number of runs with different centroid seeds" help=" "/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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382 </xml> |
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383 |
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384 <xml name="init"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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385 <param argument="init" type="select" label="Centroid initialization method" help="''k-means++'' selects initial cluster centers that speed up convergence. ''random'' chooses k observations (rows) at random from data as initial centroids."> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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386 <option value="k-means++">k-means++</option> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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387 <option value="random">random</option> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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388 </param> |
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389 </xml> |
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390 |
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391 <xml name="gamma" token_default_value="1.0" token_label="Scaling parameter" token_help_text=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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392 <param argument="gamma" type="float" optional="true" value="@DEFAULT_VALUE@" label="@LABEL@" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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393 </xml> |
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394 |
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395 <xml name="degree" token_default_value="3" token_label="Degree of the polynomial" token_help_text=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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396 <param argument="degree" type="integer" optional="true" value="@DEFAULT_VALUE@" label="@LABEL@" help="@HELP_TEXT@"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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397 </xml> |
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398 |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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399 <xml name="coef0" token_default_value="1" token_label="Zero coefficient" token_help_text=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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400 <param argument="coef0" type="integer" optional="true" value="@DEFAULT_VALUE@" label="@LABEL@" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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401 </xml> |
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402 |
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403 <xml name="pos_label" token_default_value=""> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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404 <param argument="pos_label" type="integer" optional="true" value="@DEFAULT_VALUE@" label="Label of the positive class" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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405 </xml> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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406 |
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407 <xml name="average"> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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408 <param argument="average" type="select" optional="true" label="Averaging type" help=" "> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
409 <option value="micro">Calculate metrics globally by counting the total true positives, false negatives and false positives. (micro)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
410 <option value="samples">Calculate metrics for each instance, and find their average. Only meaningful for multilabel. (samples)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
411 <option value="macro">Calculate metrics for each label, and find their unweighted mean. This does not take label imbalance into account. (macro)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
412 <option value="weighted">Calculate metrics for each label, and find their average, weighted by support (the number of true instances for each label). This alters ‘macro’ to account for label imbalance; it can result in an F-score that is not between precision and recall. (weighted)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
413 <option value="None">None</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
414 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
415 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
416 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
417 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
418 <xml name="beta"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
419 <param argument="beta" type="float" value="1.0" label="The strength of recall versus precision in the F-score" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
420 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
421 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
422 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
423 <!--Data interface--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
424 <xml name="tabular_input"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
425 <param name="infile" type="data" format="tabular" label="Data file with numeric values"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
426 <param name="start_column" type="data_column" data_ref="infile" optional="True" label="Select a subset of data. Start column:" /> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
427 <param name="end_column" type="data_column" data_ref="infile" optional="True" label="End column:" /> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
428 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
429 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
430 <xml name="sample_cols" token_label1="File containing true class labels:" token_label2="File containing predicted class labels:" token_multiple1="False" token_multiple2="False" token_format1="tabular" token_format2="tabular" token_help1="" token_help2=""> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
431 <param name="infile1" type="data" format="@FORMAT1@" label="@LABEL1@" help="@HELP1@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
432 <param name="col1" multiple="@MULTIPLE1@" type="data_column" data_ref="infile1" label="Select target column(s):"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
433 <param name="infile2" type="data" format="@FORMAT2@" label="@LABEL2@" help="@HELP2@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
434 <param name="col2" multiple="@MULTIPLE2@" type="data_column" data_ref="infile2" label="Select target column(s):"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
435 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
436 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
437 |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
438 <xml name="samples_tabular" token_multiple1="false" token_multiple2="false"> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
439 <param name="infile1" type="data" format="tabular" label="Training samples dataset:"/> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
440 <param name="header1" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="False" label="Does the dataset contain header:" /> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
441 <conditional name="column_selector_options_1"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
442 <expand macro="samples_column_selector_options" multiple="@MULTIPLE1@"/> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
443 </conditional> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
444 <param name="infile2" type="data" format="tabular" label="Dataset containing class labels:"/> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
445 <param name="header2" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="False" label="Does the dataset contain header:" /> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
446 <conditional name="column_selector_options_2"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
447 <expand macro="samples_column_selector_options" column_option="selected_column_selector_option2" col_name="col2" multiple="@MULTIPLE2@" infile="infile2"/> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
448 </conditional> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
449 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
450 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
451 |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
452 <xml name="samples_column_selector_options" token_column_option="selected_column_selector_option" token_col_name="col1" token_multiple="False" token_infile="infile1"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
453 <param name="@COLUMN_OPTION@" type="select" label="Choose how to select data by column:"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
454 <option value="by_index_number" selected="true">Select columns by column index number(s)</option> |
12
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
455 <option value="by_header_name">Select columns by column header name(s)</option> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
456 <option value="all_but_by_index_number">All columns but by column index number(s)</option> |
12
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
457 <option value="all_but_by_header_name">All columns but by column header name(s)</option> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
458 <option value="all_columns">All columns</option> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
459 </param> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
460 <when value="by_index_number"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
461 <param name="@COL_NAME@" multiple="@MULTIPLE@" type="data_column" data_ref="@INFILE@" label="Select target column(s):"/> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
462 </when> |
12
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
463 <when value="by_header_name"> |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
464 <param name="@COL_NAME@" type="text" value="" label="Type header name(s):" help="String seperate by colon. For example: target1,target2"/> |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
465 </when> |
11
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
parents:
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diff
changeset
|
466 <when value="all_but_by_index_number"> |
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
parents:
10
diff
changeset
|
467 <param name="@COL_NAME@" multiple="@MULTIPLE@" type="data_column" data_ref="@INFILE@" label="Select target column(s):"/> |
6b31f5167cf8
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 64158f357e708f0b60d2669d92d614f7aee34c0e
bgruening
parents:
10
diff
changeset
|
468 </when> |
12
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
469 <when value="all_but_by_header_name"> |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
470 <param name="@COL_NAME@" type="text" value="" label="Type header name(s):" help="String seperate by colon. For example: target1,target2"/> |
ada7bb28fe13
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
bgruening
parents:
11
diff
changeset
|
471 </when> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
472 <when value="all_columns"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
473 </when> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
474 </xml> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
475 |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
476 <xml name="clf_inputs_extended" token_label1=" " token_label2=" " token_multiple="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
477 <conditional name="true_columns"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
478 <param name="selected_input1" type="select" label="Select the input type of true labels dataset:"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
479 <option value="tabular" selected="true">Tabular</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
480 <option value="sparse">Sparse</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
481 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
482 <when value="tabular"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
483 <param name="infile1" type="data" label="@LABEL1@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
484 <param name="col1" type="data_column" data_ref="infile1" label="Select the target column:"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
485 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
486 <when value="sparse"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
487 <param name="infile1" type="data" format="txt" label="@LABEL1@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
488 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
489 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
490 <conditional name="predicted_columns"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
491 <param name="selected_input2" type="select" label="Select the input type of predicted labels dataset:"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
492 <option value="tabular" selected="true">Tabular</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
493 <option value="sparse">Sparse</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
494 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
495 <when value="tabular"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
496 <param name="infile2" type="data" label="@LABEL2@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
497 <param name="col2" multiple="@MULTIPLE@" type="data_column" data_ref="infile2" label="Select target column(s):"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
498 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
499 <when value="sparse"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
500 <param name="infile2" type="data" format="txt" label="@LABEL1@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
501 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
502 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
503 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
504 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
505 <xml name="clf_inputs" token_label1="Dataset containing true labels (tabular):" token_label2="Dataset containing predicted values (tabular):" token_multiple1="False" token_multiple="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
506 <param name="infile1" type="data" format="tabular" label="@LABEL1@"/> |
7
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
507 <param name="header1" type="boolean" optional="True" truevalue="booltrue" falsevalue="boolfalse" checked="False" label="Does the dataset contain header:" /> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
508 <conditional name="column_selector_options_1"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
509 <expand macro="samples_column_selector_options" multiple="@MULTIPLE1@"/> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
510 </conditional> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
511 <param name="infile2" type="data" format="tabular" label="@LABEL2@"/> |
7
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
512 <param name="header2" type="boolean" optional="True" truevalue="booltrue" falsevalue="boolfalse" checked="False" label="Does the dataset contain header:" /> |
10
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
513 <conditional name="column_selector_options_2"> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
514 <expand macro="samples_column_selector_options" column_option="selected_column_selector_option2" col_name="col2" multiple="@MULTIPLE@" infile="infile2"/> |
f37546afddba
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
9
diff
changeset
|
515 </conditional> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
516 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
517 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
518 <xml name="multiple_input" token_name="input_files" token_max_num="10" token_format="txt" token_label="Sparse matrix file (.mtx, .txt)" token_help_text="Specify a sparse matrix file in .txt format."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
519 <repeat name="@NAME@" min="1" max="@MAX_NUM@" title="Select input file(s):"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
520 <param name="input" type="data" format="@FORMAT@" label="@LABEL@" help="@HELP_TEXT@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
521 </repeat> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
522 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
523 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
524 <xml name="sparse_target" token_label1="Select a sparse matrix:" token_label2="Select the tabular containing true labels:" token_multiple="False" token_format1="txt" token_format2="tabular" token_help1="" token_help2=""> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
525 <param name="infile1" type="data" format="@FORMAT1@" label="@LABEL1@" help="@HELP1@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
526 <param name="infile2" type="data" format="@FORMAT2@" label="@LABEL2@" help="@HELP2@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
527 <param name="col2" multiple="@MULTIPLE@" type="data_column" data_ref="infile2" label="Select target column(s):"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
528 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
529 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
530 <xml name="sl_mixed_input"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
531 <conditional name="input_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
532 <param name="selected_input" type="select" label="Select input type:"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
533 <option value="tabular" selected="true">tabular data</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
534 <option value="sparse">sparse matrix</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
535 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
536 <when value="tabular"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
537 <expand macro="samples_tabular" multiple1="true"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
538 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
539 <when value="sparse"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
540 <expand macro="sparse_target"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
541 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
542 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
543 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
544 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
545 <xml name="multitype_input" token_format="tabular" token_help="All datasets with tabular format are supporetd."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
546 <param name="infile_transform" type="data" format="@FORMAT@" label="Select a dataset to transform:" help="@HELP@"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
547 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
548 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
549 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
550 <!--Advanced options--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
551 <xml name="nn_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
552 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
553 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
554 <param argument="weights" type="select" label="Weight function" help="Used in prediction."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
555 <option value="uniform" selected="true">Uniform weights. All points in each neighborhood are weighted equally. (Uniform)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
556 <option value="distance">Weight points by the inverse of their distance. (Distance)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
557 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
558 <param argument="algorithm" type="select" label="Neighbor selection algorithm" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
559 <option value="auto" selected="true">Auto</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
560 <option value="ball_tree">BallTree</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
561 <option value="kd_tree">KDTree</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
562 <option value="brute">Brute-force</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
563 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
564 <param argument="leaf_size" type="integer" value="30" label="Leaf size" help="Used with BallTree and KDTree. Affects the time and memory usage of the constructed tree."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
565 <!--param name="metric"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
566 <!--param name="p"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
567 <!--param name="metric_params"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
568 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
569 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
570 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
571 <xml name="svc_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
572 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
573 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
574 <param argument="kernel" type="select" optional="true" label="Kernel type" help="Kernel type to be used in the algorithm. If none is given, ‘rbf’ will be used."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
575 <option value="rbf" selected="true">rbf</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
576 <option value="linear">linear</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
577 <option value="poly">poly</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
578 <option value="sigmoid">sigmoid</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
579 <option value="precomputed">precomputed</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
580 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
581 <param argument="degree" type="integer" optional="true" value="3" label="Degree of the polynomial (polynomial kernel only)" help="Ignored by other kernels. dafault : 3 "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
582 <!--TODO: param argument="gamma" float, optional (default=’auto’) --> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
583 <param argument="coef0" type="float" optional="true" value="0.0" label="Zero coefficient (polynomial and sigmoid kernels only)" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
584 help="Independent term in kernel function. dafault: 0.0 "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
585 <param argument="shrinking" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
586 label="Use the shrinking heuristic" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
587 <param argument="probability" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="false" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
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588 label="Enable probability estimates. " help="This must be enabled prior to calling fit, and will slow down that method."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
589 <!-- param argument="cache_size"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
590 <!--expand macro="class_weight"/--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff
changeset
|
591 <expand macro="tol" default_value="0.001" help_text="Tolerance for stopping criterion. "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
|
592 <expand macro="max_iter" default_value="-1" label="Solver maximum number of iterations" help_text="Hard limit on iterations within solver, or -1 for no limit."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff
changeset
|
593 <!--param argument="decision_function_shape"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
594 <expand macro="random_state" help_text="Integer number. The seed of the pseudo random number generator to use when shuffling the data for probability estimation. A fixed seed allows reproducible results."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
595 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
|
596 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
597 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
598 <xml name="spectral_clustering_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
599 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
600 <expand macro="n_clusters"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
601 <param argument="eigen_solver" type="select" value="" label="Eigen solver" help="The eigenvalue decomposition strategy to use."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
602 <option value="arpack" selected="true">arpack</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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changeset
|
603 <option value="lobpcg">lobpcg</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
604 <option value="amg">amg</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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605 <!--None--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
606 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff
changeset
|
607 <expand macro="random_state"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
608 <expand macro="n_init"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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609 <param argument="gamma" type="float" optional="true" value="1.0" label="Kernel scaling factor" help="Scaling factor of RBF, polynomial, exponential chi^2 and sigmoid affinity kernel. Ignored for affinity=''nearest_neighbors''."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
610 <param argument="affinity" type="select" label="Affinity" help="Affinity kernel to use. "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
611 <option value="rbf" selected="true">RBF</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
612 <option value="precomputed">precomputed</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
613 <option value="nearest_neighbors">Nearset neighbors</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
614 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
615 <param argument="n_neighbors" type="integer" optional="true" value="10" label="Number of neighbors" help="Number of neighbors to use when constructing the affinity matrix using the nearest neighbors method. Ignored for affinity=''rbf''"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff
changeset
|
616 <!--param argument="eigen_tol"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
617 <param argument="assign_labels" type="select" label="Assign labels" help="The strategy to use to assign labels in the embedding space."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
618 <option value="kmeans" selected="true">kmeans</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
619 <option value="discretize">discretize</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
620 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
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621 <param argument="degree" type="integer" optional="true" value="3" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff
changeset
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622 label="Degree of the polynomial (polynomial kernel only)" help="Ignored by other kernels. dafault : 3 "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
623 <param argument="coef0" type="integer" optional="true" value="1" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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624 label="Zero coefficient (polynomial and sigmoid kernels only)" help="Ignored by other kernels. dafault : 1 "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
625 <!--param argument="kernel_params"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
626 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
627 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
628 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
629 <xml name="minibatch_kmeans_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
630 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
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631 <expand macro="n_clusters"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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|
632 <expand macro="init"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
633 <expand macro="n_init" default_value="3"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
634 <expand macro="max_iter" default_value="100"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
635 <expand macro="tol" help_text="Early stopping heuristics based on normalized center change. To disable set to 0.0 ."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
636 <expand macro="random_state"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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changeset
|
637 <param argument="batch_size" type="integer" optional="true" value="100" label="Batch size" help="Size of the mini batches."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
638 <!--param argument="compute_labels"--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
639 <param argument="max_no_improvement" type="integer" optional="true" value="10" label="Maximum number of improvement attempts" help=" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
640 Convergence detection based on inertia (the consecutive number of mini batches that doe not yield an improvement on the smoothed inertia). |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
641 To disable, set max_no_improvement to None. "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
642 <param argument="init_size" type="integer" optional="true" value="" label="Number of random initialization samples" help="Number of samples to randomly sample for speeding up the initialization . ( default: 3 * batch_size )"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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|
643 <param argument="reassignment_ratio" type="float" optional="true" value="0.01" label="Re-assignment ratio" help="Controls the fraction of the maximum number of counts for a center to be reassigned. Higher values yield better clustering results."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
644 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
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changeset
|
645 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
646 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
647 <xml name="kmeans_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
648 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
649 <expand macro="n_clusters"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
650 <expand macro="init"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
651 <expand macro="n_init"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
652 <expand macro="max_iter"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
653 <expand macro="tol" default_value="0.0001" help_text="Relative tolerance with regards to inertia to declare convergence."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
654 <!--param argument="precompute_distances"/--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
655 <expand macro="random_state"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
656 <param argument="copy_x" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" label="Use a copy of data for precomputing distances" help="Mofifying the original data introduces small numerical differences caused by subtracting and then adding the data mean."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
657 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
658 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
659 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
660 <xml name="birch_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
661 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
662 <param argument="threshold" type="float" optional="true" value="0.5" label="Subcluster radius threshold" help="The radius of the subcluster obtained by merging a new sample; the closest subcluster should be less than the threshold to avoid a new subcluster."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
663 <param argument="branching_factor" type="integer" optional="true" value="50" label="Maximum number of subclusters per branch" help="Maximum number of CF subclusters in each node."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
664 <expand macro="n_clusters" default_value="3"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
665 <!--param argument="compute_labels"/--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
666 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
667 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
668 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
669 <xml name="dbscan_advanced_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
670 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
671 <param argument="eps" type="float" optional="true" value="0.5" label="Maximum neighborhood distance" help="The maximum distance between two samples for them to be considered as in the same neighborhood."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
672 <param argument="min_samples" type="integer" optional="true" value="5" label="Minimal core point density" help="The number of samples (or total weight) in a neighborhood for a point (including the point itself) to be considered as a core point."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
673 <param argument="metric" type="text" optional="true" value="euclidean" label="Metric" help="The metric to use when calculating distance between instances in a feature array."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
674 <param argument="algorithm" type="select" label="Pointwise distance computation algorithm" help="The algorithm to be used by the NearestNeighbors module to compute pointwise distances and find nearest neighbors."> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
675 <option value="auto" selected="true">auto</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
676 <option value="ball_tree">ball_tree</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
677 <option value="kd_tree">kd_tree</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
678 <option value="brute">brute</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
679 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
680 <param argument="leaf_size" type="integer" optional="true" value="30" label="Leaf size" help="Leaf size passed to BallTree or cKDTree. Memory and time efficieny factor in tree constrution and querying."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
681 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
682 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
683 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
684 <xml name="clustering_algorithms_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
685 <conditional name="algorithm_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
686 <param name="selected_algorithm" type="select" label="Clustering Algorithm"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
687 <option value="KMeans" selected="true">KMeans</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
688 <option value="SpectralClustering">Spectral Clustering</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
689 <option value="MiniBatchKMeans">Mini Batch KMeans</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
690 <option value="DBSCAN">DBSCAN</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
691 <option value="Birch">Birch</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
692 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
693 <when value="KMeans"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
694 <expand macro="kmeans_advanced_options"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
695 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
696 <when value="DBSCAN"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
697 <expand macro="dbscan_advanced_options"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
698 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
699 <when value="Birch"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
700 <expand macro="birch_advanced_options"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
701 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
702 <when value="SpectralClustering"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
703 <expand macro="spectral_clustering_advanced_options"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
704 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
705 <when value="MiniBatchKMeans"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
706 <expand macro="minibatch_kmeans_advanced_options"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
707 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
708 </conditional> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
709 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
710 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
711 <xml name="distance_metrics"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
712 <param argument="metric" type="select" label="Distance metric" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
713 <option value="euclidean" selected="true">euclidean</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
714 <option value="cityblock">cityblock</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
715 <option value="cosine">cosine</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
716 <option value="l1">l1</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
717 <option value="l2">l2</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
718 <option value="manhattan">manhattan</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
719 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
720 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
721 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
722 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
723 <xml name="distance_nonsparse_metrics"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
724 <option value="braycurtis">braycurtis</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
725 <option value="canberra">canberra</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
726 <option value="chebyshev">chebyshev</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
727 <option value="correlation">correlation</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
728 <option value="dice">dice</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
729 <option value="hamming">hamming</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
730 <option value="jaccard">jaccard</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
731 <option value="kulsinski">kulsinski</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
732 <option value="mahalanobis">mahalanobis</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
733 <option value="matching">matching</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
734 <option value="minkowski">minkowski</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
735 <option value="rogerstanimoto">rogerstanimoto</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
736 <option value="russellrao">russellrao</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
737 <option value="seuclidean">seuclidean</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
738 <option value="sokalmichener">sokalmichener</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
739 <option value="sokalsneath">sokalsneath</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
740 <option value="sqeuclidean">sqeuclidean</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
741 <option value="yule">yule</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
742 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
743 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
744 <xml name="pairwise_kernel_metrics"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
745 <param argument="metric" type="select" label="Pirwise Kernel metric" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
746 <option value="rbf" selected="true">rbf</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
747 <option value="sigmoid">sigmoid</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
748 <option value="polynomial">polynomial</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
749 <option value="linear" selected="true">linear</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
750 <option value="chi2">chi2</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
751 <option value="additive_chi2">additive_chi2</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
752 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
753 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
754 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
755 <xml name="sparse_pairwise_metric_functions"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
756 <param name="selected_metric_function" type="select" label="Select the pairwise metric you want to compute:"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
757 <option value="euclidean_distances" selected="true">Euclidean distance matrix</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
758 <option value="pairwise_distances">Distance matrix</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
759 <option value="pairwise_distances_argmin">Minimum distances between one point and a set of points</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
760 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
761 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
762 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
763 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
764 <xml name="pairwise_metric_functions"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
765 <option value="additive_chi2_kernel" >Additive chi-squared kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
766 <option value="chi2_kernel">Exponential chi-squared kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
767 <option value="linear_kernel">Linear kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
768 <option value="manhattan_distances">L1 distances</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
769 <option value="pairwise_kernels">Kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
770 <option value="polynomial_kernel">Polynomial kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
771 <option value="rbf_kernel">Gaussian (rbf) kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
772 <option value="laplacian_kernel">Laplacian kernel</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
773 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
774 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
775 <xml name="sparse_pairwise_condition"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
776 <when value="pairwise_distances"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
777 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
778 <expand macro="distance_metrics"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
779 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
780 </expand> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
781 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
782 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
783 <when value="euclidean_distances"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
784 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
785 <param argument="squared" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="false" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
786 label="Return squared Euclidean distances" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
787 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
788 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
789 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
790 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
791 <xml name="argmin_distance_condition"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
792 <when value="pairwise_distances_argmin"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
793 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
794 <param argument="axis" type="integer" optional="true" value="1" label="Axis" help="Axis along which the argmin and distances are to be computed."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
795 <expand macro="distance_metrics"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
796 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
797 </expand> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
798 <param argument="batch_size" type="integer" optional="true" value="500" label="Batch size" help="Number of rows to be processed in each batch run."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
799 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
800 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
801 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
802 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
803 <xml name="sparse_preprocessors"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
804 <param name="selected_pre_processor" type="select" label="Select a preprocessor:"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
805 <option value="StandardScaler" selected="true">Standard Scaler (Standardizes features by removing the mean and scaling to unit variance)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
806 <option value="Binarizer">Binarizer (Binarizes data)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
807 <option value="Imputer">Imputer (Completes missing values)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
808 <option value="MaxAbsScaler">Max Abs Scaler (Scales features by their maximum absolute value)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
809 <option value="Normalizer">Normalizer (Normalizes samples individually to unit norm)</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
810 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
811 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
812 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
813 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
814 <xml name="sparse_preprocessor_options"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
815 <when value="Binarizer"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
816 <expand macro="multitype_input" format="tabular,txt" help="Tabular and sparse datasets are supporetd."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
817 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
818 <param argument="copy" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
819 label="Use a copy of data for precomputing binarization" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
820 <param argument="threshold" type="float" optional="true" value="0.0" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
821 label="Threshold" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
822 help="Feature values below or equal to this are replaced by 0, above it by 1. Threshold may not be less than 0 for operations on sparse matrices. "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
823 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
824 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
825 <when value="Imputer"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
826 <expand macro="multitype_input" format="tabular,txt" help="Tabular and sparse datasets are supporetd."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
827 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
828 <param argument="copy" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
829 label="Use a copy of data for precomputing imputation" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
830 <param argument="strategy" type="select" optional="true" label="Imputation strategy" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
831 <option value="mean" selected="true">Replace missing values using the mean along the axis</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
832 <option value="median">Replace missing values using the median along the axis</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
833 <option value="most_frequent">Replace missing using the most frequent value along the axis</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
834 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
835 <param argument="missing_values" type="text" optional="true" value="NaN" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
836 label="Placeholder for missing values" help="For missing values encoded as numpy.nan, use the string value “NaN”"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
837 <param argument="axis" type="boolean" optional="true" truevalue="1" falsevalue="0" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
838 label="Impute along axis = 1" help="If fasle, axis = 0 is selected for imputation. "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
839 <!--param argument="axis" type="select" optional="true" label="The axis along which to impute" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
840 <option value="0" selected="true">Impute along columns</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
841 <option value="1">Impute along rows</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
842 </param--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
843 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
844 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
845 <when value="StandardScaler"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
846 <expand macro="multitype_input"/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
847 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
848 <param argument="copy" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
849 label="Use a copy of data for performing inplace scaling" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
850 <param argument="with_mean" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
851 label="Center the data before scaling" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
852 <param argument="with_std" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
853 label="Scale the data to unit variance (or unit standard deviation)" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
854 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
855 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
856 <when value="MaxAbsScaler"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
857 <expand macro="multitype_input" format="tabular,txt" help="Tabular and sparse datasets are supporetd."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
858 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
859 <param argument="copy" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
860 label="Use a copy of data for precomputing scaling" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
861 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
862 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
863 <when value="Normalizer"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
864 <expand macro="multitype_input" format="tabular,txt" help="Tabular and sparse datasets are supporetd."/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
865 <section name="options" title="Advanced Options" expanded="False"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
866 <param argument="norm" type="select" optional="true" label="The norm to use to normalize non zero samples" help=" "> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
867 <option value="l1" selected="true">l1</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
868 <option value="l2">l2</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
869 <option value="max">max</option> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
870 </param> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
871 <param argument="copy" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="true" |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
872 label="Use a copy of data for precomputing row normalization" help=" "/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
873 </section> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
874 </when> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
875 <yield/> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
876 </xml> |
9
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
877 <xml name="estimator_input_no_fit"> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
878 <expand macro="feature_selection_estimator" /> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
879 <conditional name="extra_estimator"> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
880 <expand macro="feature_selection_extra_estimator" /> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
881 <expand macro="feature_selection_estimator_choices" /> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
882 </conditional> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
883 </xml> |
8
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
884 <xml name="feature_selection_all"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
885 <conditional name="feature_selection_algorithms"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
886 <param name="selected_algorithm" type="select" label="Select a feature selection algorithm"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
887 <option value="SelectFromModel" selected="true">SelectFromModel - Meta-transformer for selecting features based on importance weights</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
888 <option value="GenericUnivariateSelect" selected="true">GenericUnivariateSelect - Univariate feature selector with configurable strategy</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
889 <option value="SelectPercentile">SelectPercentile - Select features according to a percentile of the highest scores</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
890 <option value="SelectKBest">SelectKBest - Select features according to the k highest scores</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
891 <option value="SelectFpr">SelectFpr - Filter: Select the p-values below alpha based on a FPR test</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
892 <option value="SelectFdr">SelectFdr - Filter: Select the p-values for an estimated false discovery rate</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
893 <option value="SelectFwe">SelectFwe - Filter: Select the p-values corresponding to Family-wise error rate</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
894 <option value="RFE">RFE - Feature ranking with recursive feature elimination</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
895 <option value="RFECV">RFECV - Feature ranking with recursive feature elimination and cross-validated selection of the best number of features</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
896 <option value="VarianceThreshold">VarianceThreshold - Feature selector that removes all low-variance features</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
897 <!--option value="chi2">Compute chi-squared stats between each non-negative feature and class</option--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
898 <!--option value="f_classif">Compute the ANOVA F-value for the provided sample</option--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
899 <!--option value="f_regression">Univariate linear regression tests</option--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
900 <!--option value="mutual_info_classif">Estimate mutual information for a discrete target variable</option--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
901 <!--option value="mutual_info_regression">Estimate mutual information for a continuous target variable</option--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
902 </param> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
903 <when value="SelectFromModel"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
904 <expand macro="feature_selection_estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
905 <conditional name="extra_estimator"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
906 <expand macro="feature_selection_extra_estimator" > |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
907 <option value="no_load">No, I will load a prefitted estimator</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
908 </expand> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
909 <expand macro="feature_selection_estimator_choices" > |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
910 <when value="no_load"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
911 <param name="fitted_estimator" type="data" format='zip' label="Load a prefitted estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
912 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
913 </expand> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
914 </conditional> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
915 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
916 <param argument="threshold" type="text" value="" optional="true" label="threshold" help="The threshold value to use for feature selection. e.g. 'mean', 'median', '1.25*mean'." /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
917 <param argument="norm_order" type="integer" value="1" label="norm_order" help="Order of the norm used to filter the vectors of coefficients below threshold in the case where the coef_ attribute of the estimator is of dimension 2. " /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
918 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
919 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
920 <when value="GenericUnivariateSelect"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
921 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
922 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
923 <param argument="mode" type="select" label="Feature selection mode"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
924 <option value="percentile">percentile</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
925 <option value="k_best">k_best</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
926 <option value="fpr">fpr</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
927 <option value="fdr">fdr</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
928 <option value="fwe">fwe</option> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
929 </param> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
930 <param argument="param" type="float" value="" optional="true" label="Parameter of the corresponding mode" help="float or int depending on the feature selection mode" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
931 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
932 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
933 <when value="SelectPercentile"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
934 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
935 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
936 <param argument="percentile" type="integer" value="10" optional="True" label="Percent of features to keep" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
937 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
938 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
939 <when value="SelectKBest"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
940 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
941 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
942 <param argument="k" type="integer" value="10" optional="True" label="Number of top features to select" help="No 'all' option is supported." /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
943 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
944 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
945 <when value="SelectFpr"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
946 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
947 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
948 <param argument="alpha" type="float" value="" optional="True" label="Alpha" help="The highest p-value for features to be kept."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
949 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
950 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
951 <when value="SelectFdr"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
952 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
953 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
954 <param argument="alpha" type="float" value="" optional="True" label="Alpha" help="The highest uncorrected p-value for features to keep."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
955 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
956 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
957 <when value="SelectFwe"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
958 <expand macro="feature_selection_score_function" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
959 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
960 <param argument="alpha" type="float" value="" optional="True" label="Alpha" help="The highest uncorrected p-value for features to keep."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
961 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
962 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
963 <when value="RFE"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
964 <expand macro="feature_selection_estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
965 <conditional name="extra_estimator"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
966 <expand macro="feature_selection_extra_estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
967 <expand macro="feature_selection_estimator_choices" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
968 </conditional> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
969 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
970 <param argument="n_features_to_select" type="integer" value="" optional="true" label="n_features_to_select" help="The number of features to select. If None, half of the features are selected." /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
971 <param argument="step" type="float" value="1" label="step" optional="true" help="Default = 1. " /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
972 <param argument="verbose" type="integer" value="0" label="verbose" help="Controls verbosity of output." /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
973 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
974 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
975 <when value="RFECV"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
976 <expand macro="feature_selection_estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
977 <conditional name="extra_estimator"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
978 <expand macro="feature_selection_extra_estimator" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
979 <expand macro="feature_selection_estimator_choices" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
980 </conditional> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
981 <section name="options" title="Other Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
7
diff
changeset
|
982 <param argument="step" type="float" value="1" label="step" optional="true" help="Default = 1. " /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
983 <param argument="cv" type="integer" value="" optional="true" label="cv" help="Determines the cross-validation splitting strategy" /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
984 <param argument="scoring" type="text" value="" optional="true" label="scoring" help="A string (see model evaluation documentation) or a scorer callable object / function with signature scorer(estimator, X, y)."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
985 <param argument="verbose" type="integer" value="0" label="verbose" help="Controls verbosity of output." /> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
986 <param argument="n_jobs" type="integer" value="1" label="n_jobs" help="Number of cores to run in parallel while fitting across folds. Defaults to 1 core."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
987 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
988 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
989 <when value="VarianceThreshold"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
990 <section name="options" title="Options" expanded="True"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
991 <param argument="threshold" type="float" value="" optional="True" label="Threshold" help="Features with a training-set variance lower than this threshold will be removed."/> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
992 </section> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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changeset
|
993 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
994 <!--when value="chi2"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
995 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
996 <when value="f_classif"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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changeset
|
997 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
998 <when value="f_regression"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
999 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
1000 <when value="mutual_info_classif"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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changeset
|
1001 </when> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
1002 <when value="mutual_info_regression"> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
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parents:
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diff
changeset
|
1003 </when--> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
1004 </conditional> |
75527861a055
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 79fe42239dcf077b13f85cbcd6c6e30d7e1e4832
bgruening
parents:
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diff
changeset
|
1005 </xml> |
6
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
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parents:
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diff
changeset
|
1006 <xml name="feature_selection_score_function"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1007 <param argument="score_func" type="select" label="Select a score function"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
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parents:
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diff
changeset
|
1008 <option value="chi2">chi2 - Compute chi-squared stats between each non-negative feature and class</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
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parents:
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diff
changeset
|
1009 <option value="f_classif">f_classif - Compute the ANOVA F-value for the provided sample</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1010 <option value="f_regression">f_regression - Univariate linear regression tests</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1011 <option value="mutual_info_classif">mutual_info_classif - Estimate mutual information for a discrete target variable</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1012 <option value="mutual_info_regression">mutual_info_regression - Estimate mutual information for a continuous target variable</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1013 </param> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
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parents:
5
diff
changeset
|
1014 </xml> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1015 <xml name="feature_selection_estimator"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1016 <param argument="estimator" type="select" label="Select an estimator" help="The base estimator from which the transformer is built."> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1017 <option value="svm.SVR(kernel="linear")">svm.SVR(kernel="linear")</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1018 <option value="svm.SVC(kernel="linear")">svm.SVC(kernel="linear")</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1019 <option value="svm.LinearSVC(penalty="l1", dual=False, tol=1e-3)">svm.LinearSVC(penalty="l1", dual=False, tol=1e-3)</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1020 <option value="linear_model.LassoCV()">linear_model.LassoCV()</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1021 <option value="ensemble.RandomForestRegressor(n_estimators = 1000, random_state = 42)">ensemble.RandomForestRegressor(n_estimators = 1000, random_state = 42)</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1022 </param> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1023 </xml> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1024 <xml name="feature_selection_extra_estimator"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1025 <param name="has_estimator" type="select" label="Does your estimator on the list above?"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1026 <option value="yes">Yes, my estimator is on the list</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1027 <option value="no">No, I need make a new estimator</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1028 <yield/> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1029 </param> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1030 </xml> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1031 <xml name="feature_selection_estimator_choices"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1032 <when value="yes"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1033 </when> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1034 <when value="no"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1035 <param name="new_estimator" type="text" value="" label="Make a new estimator" /> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1036 </when> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1037 <yield/> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1038 </xml> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1039 <xml name="feature_selection_methods"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1040 <conditional name="select_methods"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1041 <param name="selected_method" type="select" label="Select an operation"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1042 <option value="fit_transform">fit_transform - Fit to data, then transform it</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1043 <option value="get_support">get_support - Get a mask, or integer index, of the features selected</option> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1044 </param> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1045 <when value="fit_transform"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1046 <!--**fit_params--> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1047 </when> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1048 <when value="get_support"> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1049 <param name="indices" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="false" label="Indices" help="If True, the return value will be an array of integers, rather than a boolean mask."/> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1050 </when> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
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diff
changeset
|
1051 </conditional> |
e929ad0e8af6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254
bgruening
parents:
5
diff
changeset
|
1052 </xml> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1053 |
7
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
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diff
changeset
|
1054 <xml name="model_validation_common_options"> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1055 <param argument="cv" type="integer" value="" optional="true" label="cv" help="The number of folds in a (Stratified)KFold" /> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1056 <expand macro="n_jobs"/> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1057 <expand macro="verbose"/> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1058 <yield/> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1059 </xml> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1060 |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1061 <xml name="scoring"> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1062 <param argument="scoring" type="text" value="" optional="true" label="scoring" help="A metric used to evaluate the estimator"/> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1063 </xml> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1064 |
9
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
1065 <xml name="pre_dispatch" token_type="text" token_default_value="all" token_help="Number of predispatched jobs for parallel execution"> |
90c3d280c217
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 4ed8c4f6ef9ece81797a398b17a99bbaf49a6978
bgruening
parents:
8
diff
changeset
|
1066 <param argument="pre_dispatch" type="@TYPE@" value="@DEFAULT_VALUE@" optional="true" label="pre_dispatch" help="@HELP@"/> |
7
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1067 </xml> |
579b78a2a4e1
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
6
diff
changeset
|
1068 |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1069 <!-- Outputs --> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1070 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1071 <xml name="output"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1072 <outputs> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1073 <data format="tabular" name="outfile_predict"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1074 <filter>selected_tasks['selected_task'] == 'load'</filter> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1075 </data> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1076 <data format="zip" name="outfile_fit"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1077 <filter>selected_tasks['selected_task'] == 'train'</filter> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1078 </data> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1079 </outputs> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1080 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1081 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1082 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1083 <!--Citations--> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1084 <xml name="eden_citation"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1085 <citations> |
3
31cfa49c6299
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 99231ce3ef238975a6614926f2fa6326b9454ee8
bgruening
parents:
2
diff
changeset
|
1086 <citation type="doi">10.5281/zenodo.15094</citation> |
0
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1087 </citations> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1088 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1089 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1090 <xml name="sklearn_citation"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1091 <citations> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1092 <citation type="bibtex"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1093 @article{scikit-learn, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1094 title={Scikit-learn: Machine Learning in {P}ython}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1095 author={Pedregosa, F. and Varoquaux, G. and Gramfort, A. and Michel, V. |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1096 and Thirion, B. and Grisel, O. and Blondel, M. and Prettenhofer, P. |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1097 and Weiss, R. and Dubourg, V. and Vanderplas, J. and Passos, A. and |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1098 Cournapeau, D. and Brucher, M. and Perrot, M. and Duchesnay, E.}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1099 journal={Journal of Machine Learning Research}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1100 volume={12}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1101 pages={2825--2830}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1102 year={2011} |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1103 url = {https://github.com/scikit-learn/scikit-learn} |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1104 } |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1105 </citation> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1106 </citations> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
1107 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
1108 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1109 <xml name="scipy_citation"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1110 <citations> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1111 <citation type="bibtex"> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1112 @Misc{, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
1113 author = {Eric Jones and Travis Oliphant and Pearu Peterson and others}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1114 title = {{SciPy}: Open source scientific tools for {Python}}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
1115 year = {2001--}, |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1116 url = "http://www.scipy.org/", |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1117 note = {[Online; accessed 2016-04-09]} |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
1118 } |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff
changeset
|
1119 </citation> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff
changeset
|
1120 </citations> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
1121 </xml> |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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changeset
|
1122 |
9a9396e5d153
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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1123 </macros> |