# HG changeset patch
# User iuc
# Date 1552832837 14400
# Node ID 67c29afac85fe0f1a6f9642f7da1436426e1aeec
# Parent  07f6832bdd4d1b5a27e6fbd437e6843a1c9cf421
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/goseq commit 8e60c1cecc4561d61624799b0999e89687677ab1

diff -r 07f6832bdd4d -r 67c29afac85f goseq.r
--- a/goseq.r	Sat Feb 09 09:07:48 2019 -0500
+++ b/goseq.r	Sun Mar 17 10:27:17 2019 -0400
@@ -159,12 +159,12 @@
       top_n(10, wt=-over_represented_pvalue)  %>%
       mutate(hitsPerc=numDEInCat*100/numInCat) %>%
       ggplot(aes(x=hitsPerc,
-                   y=substr(term, 1, 40), # only use 1st 40 chars of terms otherwise squashes plot
-                   colour=over_represented_pvalue,
+                   y=reorder(substr(term, 1, 40), -over_represented_pvalue), # only use 1st 40 chars of terms otherwise squashes plot
+                   colour=p.adjust.over_represented,
                    size=numDEInCat)) +
       geom_point() +
       expand_limits(x=0) +
-      labs(x="% DE in category", y="Category", colour="P value", size="Count", title=paste("Top over-represented categories in", cats_title), subtitle=paste(m, " method")) +
+      labs(x="% DE in category", y="Category", colour="Adj P value", size="Count", title=paste("Top over-represented categories in", cats_title), subtitle=paste(m, " method")) +
       theme(plot.title = element_text(hjust = 0.5), plot.subtitle = element_text(hjust = 0.5))
     print(p)
   }
diff -r 07f6832bdd4d -r 67c29afac85f goseq.xml
--- a/goseq.xml	Sat Feb 09 09:07:48 2019 -0500
+++ b/goseq.xml	Sun Mar 17 10:27:17 2019 -0400
@@ -1,4 +1,4 @@
-<tool id="goseq" name="goseq" version="1.34.0">
+<tool id="goseq" name="goseq" version="1.34.0+galaxy1">
     <description>tests for overrepresented gene categories</description>
     <requirements>
         <requirement type="package" version="1.34.0">bioconductor-goseq</requirement>