Mercurial > repos > kpbioteam > clusterprofiler_go

view clusterProfiler_go.xml @ 0:5aba765e27b4 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/kpbioteam/clusterProfiler_go commit 19aa66aed9f704dc98680d2573ff7b13c81c0ca2
author kpbioteam
date Mon, 19 Mar 2018 14:01:29 -0400
parents
children 49ae9762eb96
line wrap: on
line source

<tool id="clusterProfiler_go" name="clusterProfiler_go" version="0.1.0">
    <description>run GO Analysis</description>
    <requirements>
        <requirement type="package" version="3.6.0">bioconductor-clusterprofiler</requirement>
        <requirement type="package">r-ggplot2</requirement>
        <requirement type="package" version="3.5.0">bioconductor-org.hs.eg.db</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        Rscript  ${__tool_directory__}/clusterProfiler_go.R "$input1" "$output1" "$output2"
    ]]></command>
    <inputs>
        <param type="data" name="input1" format="txt" />
    </inputs>
    <outputs>
        <data name="output1" format="txt" />
        <data name="output2" format="pdf" />
    </outputs>
    <tests>
        <test>
            <param name="input1" value="genedf.txt"/>
            <output name="output1" file="ego.txt"/>
            <output name="output2" file="ego.pdf"/>
        </test>
    </tests>
    <help><![CDATA[
        This tool provide GO Enrichment Analysis of a gene set. Given a set of genes, this will return the enrichment GO categories after FDR control.
    ]]></help>
    <citations>
        <citation type="doi">10.1089/omi.2011.0118</citation>
    </citations>
</tool>