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annotate sample_generator.xml @ 37:0f460421b212 draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit ea12f973df4b97a2691d9e4ce6bf6fae59d57717"
author bgruening
date Sat, 01 May 2021 01:34:53 +0000
parents 1e99cfb71f40
children 7f8fa89929e0
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1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
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1 <tool id="sklearn_sample_generator" name="Generate" version="@VERSION@" profile="20.05">
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2 <description>random samples with controlled size and complexity</description>
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3 <macros>
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4 <import>main_macros.xml</import>
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5 </macros>
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6 <expand macro="python_requirements" />
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7 <expand macro="macro_stdio" />
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8 <version_command>echo "@VERSION@"</version_command>
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9 <command>
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10 <![CDATA[
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11 python "$sample_generator_script" '$inputs'
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12 ]]>
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13 </command>
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14 <configfiles>
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15 <inputs name="inputs" />
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16 <configfile name="sample_generator_script">
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17 <![CDATA[
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18 import sys
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19 import json
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20 import pandas
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21 import numpy as np
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22 from sklearn import datasets
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24 input_json_path = sys.argv[1]
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25 with open(input_json_path, "r") as param_handler:
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26 params = json.load(param_handler)
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28 my_function = getattr(datasets, params["sample_generators"]["selected_generator"])
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29 options = params["sample_generators"]["options"]
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30 my_points, my_targets = my_function(**options)
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32 points_df = pandas.DataFrame(my_points)
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33 targets_df = pandas.DataFrame(my_targets)
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34 res = pandas.concat([points_df, targets_df], axis=1)
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35 res.to_csv(path_or_buf = "$outfile", sep="\t", index=False, float_format='%.14f')
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37 ]]>
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38 </configfile>
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39 </configfiles>
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40 <inputs>
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41 <conditional name="sample_generators">
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42 <param name="selected_generator" type="select" label="Sample type:">
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43 <option value="make_blobs" selected="true">Isotropic Gaussian blobs for clustering</option>
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44 <option value="make_classification">Random n-class classification problem</option>
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45 <option value="make_gaussian_quantiles">Isotropic Gaussian and label samples by quantile</option>
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46 <option value="make_hastie_10_2">Data for binary classification (used in Hastie et al)</option>
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47 <option value="make_circles">Large circle containing a smaller circle in 2d (circles)</option>
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48 <option value="make_moons">Two interleaving half circles (moons)</option>
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49 <option value="make_regression">Random regression problem</option>
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50 <option value="make_sparse_uncorrelated">Random regression problem with sparse uncorrelated design</option>
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51 <option value="make_friedman1">“Friedman #1” regression problem</option>
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52 <option value="make_friedman2">“Friedman #2” regression problem</option>
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53 <option value="make_friedman3">“Friedman #3” regression problem</option>
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54 <!--option value="make_low_rank_matrix">Mostly low rank matrix with bell-shaped singular values</option-->
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55 <!--option value="make_multilabel_classification">Random multilabel classification problem</option-->
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56 <option value="make_s_curve">S curve dataset</option>
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57 <option value="make_swiss_roll">Swiss roll dataset</option>
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58 <!--option value="make_sparse_coded_signal">Sparse combination of dictionary elements</option-->
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59 <!--option value="make_sparse_spd_matrix">Sparse symmetric definite positive matrix</option-->
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60 <!--option value="make_spd_matrix">Random symmetric, positive-definite matrix</option-->
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61 <!--option value="make_biclusters">Array with constant block diagonal structure for biclustering</option>
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62 <option value="make_checkerboard">Array with block checkerboard structure for biclustering</option-->
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63 </param>
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64 <when value="make_blobs">
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65 <section name="options" title="Advanced Options" expanded="False">
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66 <expand macro="n_samples" />
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67 <expand macro="n_features" />
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68 <param argument="centers" type="integer" optional="true" value="3" label="Number of centers to generate" help=" " />
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69 <!--todo: expand centers type : int or array of shape [n_centers, n_features]-->
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70 <param argument="cluster_std" type="float" optional="true" value="1.0" label="Standard deviation of the clusters" help=" " />
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71 <!--todo: expand cluster_std type : float or sequence of floats-->
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72 <!--param argument=center_box-->
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73 <expand macro="shuffle" label="Shuffle the samples" />
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74 <expand macro="random_state" />
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75 </section>
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76 </when>
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77 <when value="make_classification">
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78 <section name="options" title="Advanced Options" expanded="False">
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79 <expand macro="n_samples" />
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80 <expand macro="n_features" default_value="20" />
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81 <param argument="n_informative" type="integer" optional="true" value="2" label="Number of informative features" help="Each class is composed of a number of gaussian clusters each located around the vertices of a hypercube in a subspace of dimension n_informative. For each cluster, informative features are drawn independently from N(0, 1) and then randomly linearly combined within each cluster in order to add covariance. The clusters are then placed on the vertices of the hypercube. " />
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82 <param argument="n_redundant" type="integer" optional="true" value="2" label="Number of redundant features" help="These features are generated as random linear combinations of the informative features. " />
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83 <param argument="n_repeated" type="integer" optional="true" value="0" label="Number of duplicated features" help="These are drawn randomly from the informative and the redundant features. " />
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84 <param argument="n_classes" type="integer" optional="true" value="2" label="Number of classes" help="The number of classes (or labels) of the classification problem. " />
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85 <param argument="n_clusters_per_class" type="integer" optional="true" value="2" label="Number of clusters per class" help=" " />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
86 <!--param argument = weights-->
35
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diff changeset
87 <param argument="flip_y" type="float" optional="true" value="0.01" label="Fraction of samples with randomly exchanged class labels" help=" " />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
88 <!--param argument = class_sep-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
89 <!--param argument = hypercube-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
90 <!--param argument = shift-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
91 <!--param argument = scale-->
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
92 <expand macro="shuffle" label="Shuffle the samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
93 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
94 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
95 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
96 <when value="make_gaussian_quantiles">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
97 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
98 <!--param argument = mean-->
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
99 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
100 <expand macro="n_features" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
101 <param argument="cov" type="float" optional="true" value="1" label="Unit matrix coefficient" help="The covariance matrix will be this value times the unit matrix. This dataset only produces symmetric normal distributions. " />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
102 <param argument="n_classes" type="integer" optional="true" value="2" label="Number of classes" help="The number of classes (or labels) of the classification problem. " />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
103 <expand macro="shuffle" label="Shuffle the samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
104 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
105 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
106 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
107 <when value="make_hastie_10_2">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
108 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
109 <expand macro="n_samples" default_value="12000" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
110 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
111 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
112 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
113 <when value="make_circles">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
114 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
115 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
116 <expand macro="shuffle" label="Shuffle the samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
117 <expand macro="noise" default_value="" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
118 <param argument="factor" type="float" optional="true" value="0.8" label="Scale factor between inner and outer circle" help=" Floating point number less than 1. " />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
119 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
120 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
121 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
122 <when value="make_moons">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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123 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
124 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
125 <expand macro="shuffle" label="Shuffle the samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
126 <expand macro="noise" default_value="" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
127 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
128 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
129 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
130 <when value="make_regression">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
131 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
132 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
133 <expand macro="n_features" default_value="100" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
134 <param argument="n_informative" type="integer" optional="true" value="10" label="Number of informative features" help="the number of features used to build the linear model used to generate the output " />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
135 <param argument="n_targets" type="integer" optional="true" value="1" label="Number of regression targets" help="The dimension of the y output vector associated with a sample. By default, the output is a scalar." />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
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diff changeset
136 <param argument="bias" type="float" optional="true" value="0.0" label="Bias of the true function" help="The bias term in the underlying linear model. " />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
137 <!--param argument = effective_rank-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
138 <!--param argument = tail_strength-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
139 <!--param argument = coef-->
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
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diff changeset
140 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
141 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
142 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
143 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
144 <when value="make_sparse_uncorrelated">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
145 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
146 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
147 <expand macro="n_features" default_value="10" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
148 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
149 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
150 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
151 <when value="make_friedman1">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
152 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
153 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
154 <expand macro="n_features" default_value="10" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
155 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
156 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
157 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
158 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
159 <when value="make_friedman2">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
160 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
161 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
162 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
163 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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164 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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165 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
166 <when value="make_friedman3">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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167 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
168 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
169 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
170 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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171 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
172 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
173 <!--when value="make_low_rank_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
174 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
175 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
176 <expand macro="n_features" default_value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
177 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
178 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
179 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
180 <!--when value="make_multilabel_classification">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
181 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
182 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
183 <expand macro="n_features" default_value="20"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
184 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
185 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
186 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
187 <when value="make_s_curve">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
188 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
189 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
190 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
191 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
192 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
193 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
194 <when value="make_swiss_roll">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
195 <section name="options" title="Advanced Options" expanded="False">
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
196 <expand macro="n_samples" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
197 <expand macro="noise" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
198 <expand macro="random_state" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
199 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
200 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
201 <!--when value="make_sparse_coded_signal">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
202 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
203 <expand macro="n_samples" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
204 <expand macro="n_features" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
205 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
206 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
207 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
208 <!--when value="make_spd_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
209 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
210 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
211 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
212 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
213 <!--when value="make_sparse_spd_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
214 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
215 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
216 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
217 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
218 <!--when value="make_biclusters">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
219 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
220 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
221 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
222 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
223 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
224 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
225 <when value="make_checkerboard">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
226 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
227 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
228 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
229 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
230 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
231 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
232 </conditional>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
233 </inputs>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
234 <outputs>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
235 <data format="tabular" name="outfile" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
236 </outputs>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
237 <tests>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
238 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
239 <param name="selected_generator" value="make_blobs" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
240 <param name="random_state" value="100" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
241 <output name="outfile" file="blobs.txt" compare="sim_size" delta="1" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
242 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
243 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
244 <param name="selected_generator" value="make_classification" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
245 <param name="random_state" value="100" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
246 <output name="outfile" file="class.txt" compare="sim_size" />
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
247 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
248 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
249 <param name="selected_generator" value="make_circles" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
250 <param name="random_state" value="100" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
251 <output name="outfile" file="circles.txt" compare="sim_size" delta="1" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
252 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
253 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
254 <param name="selected_generator" value="make_friedman1" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
255 <param name="random_state" value="100" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
256 <output name="outfile" file="friedman1.txt" compare="sim_size" delta="1" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
257 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
258 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
259 <param name="selected_generator" value="make_friedman2" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
260 <param name="random_state" value="100" />
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
261 <output name="outfile" file="friedman2.txt" compare="sim_size" delta="1" />
0
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
262 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
263 <test>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
bgruening
parents: 23
diff changeset
264 <param name="selected_generator" value="make_friedman3" />
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265 <param name="random_state" value="100" />
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266 <output name="outfile" file="friedman3.txt" compare="sim_size" delta="1" />
0
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267 </test>
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268 <test>
35
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269 <param name="selected_generator" value="make_gaussian_quantiles" />
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270 <param name="random_state" value="100" />
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271 <output name="outfile" file="gaus.txt" compare="sim_size" delta="1" />
0
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272 </test>
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273 <test>
35
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274 <param name="selected_generator" value="make_hastie_10_2" />
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275 <param name="random_state" value="100" />
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276 <output name="outfile" file="hastie.txt" compare="sim_size" delta="1" />
0
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277 </test>
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278 <test>
35
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279 <param name="selected_generator" value="make_moons" />
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280 <param name="random_state" value="100" />
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281 <output name="outfile" file="moons.txt" compare="sim_size" delta="1" />
0
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282 </test>
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283 <test>
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284 <param name="selected_generator" value="make_regression" />
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285 <param name="random_state" value="100" />
23
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286 <output name="outfile" file="regression.txt" compare="sim_size" delta="1" />
0
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287 </test>
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288 <test>
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289 <param name="selected_generator" value="make_s_curve" />
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290 <param name="random_state" value="100" />
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291 <output name="outfile" file="scurve.txt" compare="sim_size" delta="1" />
0
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292 </test>
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293 <test>
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294 <param name="selected_generator" value="make_sparse_uncorrelated" />
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295 <param name="random_state" value="100" />
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296 <output name="outfile" file="sparse_u.txt" compare="sim_size" delta="1" />
0
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297 </test>
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298 <test>
35
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299 <param name="selected_generator" value="make_swiss_roll" />
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300 <param name="random_state" value="100" />
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301 <output name="outfile" file="swiss_r.txt" compare="sim_size" delta="1" />
0
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302 </test>
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303 </tests>
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304 <help>
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305 <![CDATA[
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306 **What it does**
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307
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308 This tool generates artificial data samples with specified size and controlled complexity.
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309 It provides sample generators for the following machine learning problems:
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310
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311
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312
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313 **1 - Single_label classification and clustering**
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314
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315 These generators produce a file containing the data samples. It is a tabular representation with samples in rows having features in columns.
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316 (In machine learning, each numerical property of a sample is called a feature.)
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317 The corresponding discrete targets are generated in a separate column. This column is added as the last coulmn of the data.
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318
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319
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320 **Example**
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321 Sample data with 4 features and a single target (n_samples=8 , n_features=4) :
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322
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323
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324 features columns
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325 ::
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326
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327 4.01163365529 -6.10797684314 8.29829894763 -9.10139563721
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328 10.0788438916 1.59539821454 10.0684278289 4.16975127881
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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329 -5.17607775503 -0.878286135332 6.92941850665 -5.27083063186
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330 4.00975406235 -7.11847496542 9.3802423585 -9.36732159584
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331 4.61204065139 -5.71217537352 9.12509610964 -9.2260804162
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332 8.26530668997 2.96705005011 8.88881190248 2.75339082289
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333 2.96366327113 -3.76295851562 11.7113372463 -9.79136150321
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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334 8.13319631944 -0.223645298585 10.5820605308 4.47715318678
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335
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336 target column
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337 ::
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338
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339 1
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340 0
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341 2
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342 1
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343 1
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344 0
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345 1
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346 0
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347
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348 The following generators are included in this section:
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349
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350
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351 * **Isotropic Gaussian blobs for clustering** creates multiclass datasets by allocating each class one or more normally-distributed clusters of points (isotropic = equally distributed in all directions). It provides control regarding the centers and standard deviations of each cluster, and is used to demonstrate clustering.
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352
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353 * **Random n-class classification problem** does the same specialising in introducing noise by way of: correlated, redundant and uninformative features; multiple Gaussian clusters per class; and linear transformations of the feature space.
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354
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355 * **Isotropic Gaussian and label samples by quantile** divides a single Gaussian cluster into near-equal-size classes separated by concentric hyperspheres.
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357 * **Data for binary classification (Hastie)** generates a binary problem similar to the above with 10 features.
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358
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359 * **Circles** and **moons** generate 2-dimensional binary classification datasets that are challenging to certain algorithms (e.g. centroid-based clustering or linear classification), including optional Gaussian noise. They are useful for visualisation.
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360
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361 **2 - Generators for regression**
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363 These generators produce output with same same format as in section 1, thoguh aimed for regression problems. The following generators are included in this section:
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364
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365 * **Random regression problem** produces regression targets as an optionally-sparse random linear combination of random features, with noise. Its informative features may be uncorrelated, or low rank (few features account for most of the variance). It can produce multiple targets for each point.
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366
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367 * **Random regression problem with sparse uncorrelated design** produces a target as a linear combination of four features with fixed coefficients.
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368
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369 * **Nonlinear generators** encode explicitly non-linear relations: **“Friedman #1”** is related by polynomial and sine transforms; **“Friedman #2”** includes feature multiplication and reciprocation; and **“Friedman #3”** is similar with an arctan transformation on the target.
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370
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371 **3 - Generators for manifold learning**
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373 Generators belonging to this group produce datasets suitable for non-linear dimensionality reduction problems. The idea behind this type of problem is that the dimensionality of many data sets is only artificially high. **S curve dataset** and **Swiss roll dataset** produce the same points-targets output format, sample points are 3-dimensional and the target column indicates the univariate position of the sample according to the main dimension of the points in the manifold.
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374
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375 ]]>
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376 </help>
35
1e99cfb71f40 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit e2a5eade6d0e5ddf3a47630381a0ad90d80e8a04"
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377 <expand macro="sklearn_citation" />
0
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378 </tool>