Mercurial > repos > proteore > proteore_clusterprofiler

changeset 3:67a796154e2a draft

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planemo upload commit 07fb0efd8a1badeb395fa1dc435037998b4de25f
author proteore
date Wed, 05 Sep 2018 09:34:57 -0400
parents 1c98865a8508
children 18275725e7cf
files GO-enrich.R cluster_profiler.xml
diffstat 2 files changed, 3 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/GO-enrich.R	Wed Sep 05 03:50:36 2018 -0400
+++ b/GO-enrich.R	Wed Sep 05 09:34:57 2018 -0400
@@ -41,6 +41,7 @@
   ego<-enrichGO(gene=geneid,
                 universe=universe,
                 OrgDb=orgdb,
+                keytype="ENTREZID",
                 ont=ontology,
                 pAdjustMethod="BH",
                 pvalueCutoff=pval_cutoff,
--- a/cluster_profiler.xml	Wed Sep 05 03:50:36 2018 -0400
+++ b/cluster_profiler.xml	Wed Sep 05 09:34:57 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="cluter_profiler" name="clusterProfiler" version="2018.09.04">
+<tool id="cluter_profiler" name="clusterProfiler" version="2018.09.05">
     <description>
     GO terms classification and enrichment analysis
     </description>
@@ -7,7 +7,7 @@
         <requirement type="package" version="3.5.0">bioconductor-org.hs.eg.db</requirement>
         <requirement type="package" version="3.5.0">bioconductor-org.mm.eg.db</requirement>
         <requirement type="package" version="3.2.0">bioconductor-dose</requirement>
-        <requirement type="package" version="3.6.0">bioconductor-clusterprofiler</requirement>
+        <requirement type="package" version="3.4.4">bioconductor-clusterprofiler</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         Rscript "$__tool_directory__/GO-enrich.R"