Mercurial > repos > ppericard > mixomics_blocksplsda

comparison matCor_addVar.xml @ 4:b0ab97ffc2a1 draft

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planemo upload for repository https://github.com/bilille/galaxy-mixomics-blocksplsda commit 0bf5c0745f406f2eca9c708a062c975b1f7ea386
author ppericard
date Mon, 09 Mar 2020 11:53:32 -0400
parents 0a3c83f2197a
children
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3:0a3c83f2197a 4:b0ab97ffc2a1
1 <tool id="matCor_addVar" name="matCor_addVar" version="0.2.0" profile="16.04" workflow_compatible="true"> 1 <tool id="matCor_addVar" name="matCor_addVar" version="0.3.0" profile="16.04" workflow_compatible="true">
2 2
3 <description></description> 3 <description>computes all the correlations needed to plot a correlation circle and determines which correlation circles can be superimposed</description>
4 4
5 <requirements> 5 <requirements>
6 <requirement type="package" version="6.8">bioconductor-mixomics</requirement> 6 <requirement type="package" version="6.8">bioconductor-mixomics</requirement>
7 <requirement type="package" version="2.0">r-argparse</requirement> 7 <requirement type="package" version="2.0">r-argparse</requirement>
8 </requirements> 8 </requirements>
9 9
10 <stdio> 10 <stdio>
11 <!-- <exit_code range="1:" level="fatal" /> --> 11 <!-- <exit_code range="1:" level="fatal" /> -->
12 </stdio> 12 </stdio>
13 13
14 <command detect_errors="aggressive"> 14 <command detect_errors="aggressive">
22 --output_blocks_comb ${output_blocks_comb} 22 --output_blocks_comb ${output_blocks_comb}
23 ]]> 23 ]]>
24 </command> 24 </command>
25 25
26 <inputs> 26 <inputs>
27 <param name="input_rdata" type="data" format="rdata" label="Input RData file from block.SPLSDA"/> 27 <param name="input_rdata" type="data" format="rdata"
28 <param name="cutoff_comp" type="float" value="0.8" min="0" max="1" label="" help="" /> 28 label="Input RData file from block.SPLSDA"
29 <param name="mat_block_Y" type="data" format="tabular" label="Matrix Block Y" /> 29 help="This is the RData output file from the block.splsda function." />
30 <param name="cutoff_comp" type="float" value="0.8" min="0" max="1"
31 label="Cutoff comp"
32 help="[cutoff_comp] Two correlation circles will be superimposed if the correlation of their first and second axis is greater than cutoff_comp in absolute value." />
33 <param name="mat_block_Y" type="data" format="tabular"
34 label="Matrix Block Y"
35 help="Matrix Block Y in tabular format. This table contains the name of the samples in the first column. The other columns correspond to phenotypes. For each of these other columns, a column determines which sample is associated with this phenotype (value equals to 1) or not (value equals to 0). The name of the samples in Matrix Block Y (transposed), in the sample metadata (transposed) and for all datasets have to be in the same order" />
30 </inputs> 36 </inputs>
31 37
32 <outputs> 38 <outputs>
33 <data name="output_rdata" format="rdata" label="${tool.name}_output.rdata" /> 39 <data name="output_rdata" format="rdata" label="${tool.name}_output.rdata" />
34 <data name="output_blocks_comb" format="tabular" label="${tool.name}_blocks_comb.tsv" /> 40 <data name="output_blocks_comb" format="tabular" label="${tool.name}_blocks_comb.tsv" />