Mercurial > repos > ebi-gxa > ct_get_consensus_outputs

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a1ad1ddd9b8e4db5bb82c3accae8311e0e488b19"
author ebi-gxa
date Fri, 27 Nov 2020 13:38:17 +0000
parents 32101a7373ae
children
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66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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1 <macros>
7
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2 <token name="@TOOL_VERSION@">1.1.1</token>
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3 <token name="@HELP@">More information can be found at https://github.com/ebi-gene-expression-group/cell-types-analysis</token>
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4 <token name="@PROFILE@">18.01</token>
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5 <xml name="requirements">
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6 <requirements>
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7 <requirement type="package" version="0.1.9">cell-types-analysis</requirement>
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8 <yield/>
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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9 </requirements>
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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10 </xml>
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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11 <xml name="version">
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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12 <version_command><![CDATA[
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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13 conda list | grep cell-types-analysis | egrep -o [0-9]\.[0-9]\.[0-9]
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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14 ]]></version_command>
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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15 </xml>
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16 <token name="@VERSION_HISTORY@"><![CDATA[
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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17 **Version history**
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18 0.1.6+galaxy0: Add removing non-alphanumeric characters from labels in metadata files
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19 0.0.5+galaxy0: Initial contribution. Andrey Solovyev, Expression Atlas team https://www.ebi.ac.uk/gxa/home at EMBL-EBI https://www.ebi.ac.uk/.
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20 0.0.5+galaxy1: Standardise input/output format into .txt.
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21 ]]></token>
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22 <xml name="sem_siml_options">
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23 <param type="select" name="sem_siml_metric" label="Semantic similarity metric" help="What semantic similarity metric should be used? NB: if include-sem-siml is set to True, make sure to use a metric that is in the [0;1] interval. See https://www.bioconductor.org/packages/release/bioc/html/Onassis.html for more detail.">
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24 <option value="lin" selected="true">lin</option>
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25 <option value="jaccard">jaccard</option>
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26 <option value="jc_norm">jc_norm</option>
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27 <option value="schlicker">schlicker</option>
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28 <option value="edge_resnik">edge_resnik</option>
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29 <option value="sim">sim</option>
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30 <option value="edge_leachod">edge_leachod</option>
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31 <option value="edge_slimani">edge_slimani</option>
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32 <option value="edge_wupalmer">edge_wupalmer</option>
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33 <option value="edge_rada_lca">edge_rada_lca</option>
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34 <option value="edge_li">edge_li</option>
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35 <option value="resnik">resnik</option>
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36 </param>
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37 </xml>
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38 <xml name="sanitize_strings">
0917f5e09d83 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a1ad1ddd9b8e4db5bb82c3accae8311e0e488b19"
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39 <sanitizer invalid_char="">
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40 <valid initial="string.ascii_letters,string.digits">
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41 <add value="_" />
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42 <add value="-" />
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43 <add value="[" />
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44 <add value="]" />
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45 <add value=" " />
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46 </valid>
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47 </sanitizer>
0917f5e09d83 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a1ad1ddd9b8e4db5bb82c3accae8311e0e488b19"
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48 </xml>
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49 <xml name="citations">
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50 <citations>
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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51 <citation type="bibtex">
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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52 @misc{github-cell-types-analysis.git,
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53 author = {Andrey Solovyev, EBI Gene Expression Team},
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54 year = {2020},
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55 title = {Suite of scripts for analysis of scRNA-seq cell type classification tool outputs},
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56 publisher = {GitHub},
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57 journal = {GitHub repository},
66cdd8438ac6 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 941a94360593f8dfb7804834f29fb2642ddd53a2"
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58 url = {https://github.com/ebi-gene-expression-group/cell-types-analysis.git},
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59 }
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60 </citation>
1
a31bc9849f91 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
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61 <citation type="doi">10.1101/2020.04.08.032698</citation>
0
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62 <yield />
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63 </citations>
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64 </xml>
1
a31bc9849f91 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
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65 </macros>