--- a/metaquantome_stat.xml	Thu Dec 06 08:50:19 2018 -0500
+++ b/metaquantome_stat.xml	Fri Dec 07 13:43:06 2018 -0500
@@ -1,5 +1,5 @@
-<tool id="metaquantome_stat" name="MetaQuantome Stats" version="@VERSION@.0">
-    <description>differential functional expression and taxonomic abundance</description>
+<tool id="metaquantome_stat" name="metaQuantome: stat" version="@VERSION@.0">
+    <description>differential analysis of functional expression and taxonomic abundance</description>
     <macros>
         <import>macros.xml</import>
     </macros>
@@ -25,8 +25,8 @@
             <option value="ft">Functional-taxonomic interaction analysis</option>
         </param>
         <param name="ontology" type="select" label="Ontology">
-            <option value="go">Gene Ontology (column named 'go')</option>
-            <option value="ec">Gene Ontology (column named 'go')</option>
+            <option value="go">Gene Ontology (GO) terms</option>
+            <option value="ec">Enzyme Commission (EC) numbers</option>
             <option value="cog">COG (column named 'cog')</option>
         </param>
         <param argument="--parametric" type="select" label="Statistical test to perform">
@@ -47,8 +47,6 @@
             <param name="ontology" value="ec" />
             <param name="mode" value="f" />
             <output name="outfile" value="ec_ttest_tested.tab" ftype="tabular"/>
-            <!-- stat(expandfile, sinfo=TTEST_SINFO, paired=False, parametric=True, ontology='ec', mode='f',
-                      outfile=tested_file) -->
             <param name="samps_src" value="build" />
             <repeat name="samps">
                 <param name="group_name" value="s1"/>
@@ -61,7 +59,19 @@
         </test>
     </tests>
     <help><![CDATA[
-        help
+metaQuantome stat
+===================
+
+The *stat* module is the third step in the metaQuantome analysis workflow. The purpose
+of the *stat* module is to perform differential expression analysis between 2 experimental
+conditions. metaQuantome offers paired and unpaired tests,
+as well as parametric and non-parametric options.
+
+Questions, Comments, Problems, Kudos
+--------------------------------------
+
+Please file any issues at https://github.com/galaxyproteomics/tools-galaxyp/issues.
+
     ]]></help>
     <expand macro="citations" />
 </tool>