diff topGO.xml @ 8:ddaa0c318d65 draft

planemo upload commit d23909db127a655212b79d6826033889812f59b5-dirty

--- a/topGO.xml	Thu Mar 08 11:25:05 2018 -0500
+++ b/topGO.xml	Fri Mar 23 10:43:32 2018 -0400
@@ -56,11 +56,20 @@
     <inputs>
   <conditional name="inputtype">
     <param name="filetype" type="select" label="Select your type of input file" help="The identifiers must be Ensembl gene IDs (e.g : ENSG00000139618). If it is not the case, please use the ID Mapping tool.">
-      <option value="file_all">Input file containing your identifiers</option>
+      <option value="file_all" selected="true">Input file containing your identifiers</option>
       <option value="copy_paste">Copy/paste your list of IDs</option> 
     </param>
     <when value="copy_paste">
-      <param name="genelist" type="text" label="Enter a list of identifiers"/>
+      <param name="genelist" type="text" label="Enter a list of identifiers">
+        <sanitizer>
+            <valid initial="string.printable">
+                <remove value="&apos;"/>
+            </valid>
+            <mapping initial="none">
+                <add source="&apos;" target="__sq__"/>
+            </mapping>
+        </sanitizer>
+      </param>
     </when>
     <when value="file_all">
       <param name="genelist" type="data" format="txt,tabular" label="Choose an input file" help="This file must imperatively have 1 column filled with IDs consistent with the database that will be used. Please use the MappingIDs component if this is not the case."/>
@@ -216,14 +225,25 @@
 **Multiple testing corrections**
     
 Furthermore, the following corrections for multiple testing can also be applied : 
+
 - holm
+
 - hochberg
+
 - hommel
+
 - bonferroni
+
 - BH
+
 - BY
+
 - fdr
 
+-----
+
+.. class:: infomark
+
 **Authors**
 
 Alexa A and Rahnenfuhrer J (2016). topGO: Enrichment Analysis for Gene Ontology. R package version 2.30.0.