# HG changeset patch
# User iuc
# Date 1691485519 0
# Node ID 9871e84c26ee617660af312bc21a9b613dfeeb68
# Parent  c0096052b35b4b0127c50b3ce11d83300a2be554
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinity commit c6eab3b60743dfa415dc135d657267cc8a0a31ce

diff -r c0096052b35b -r 9871e84c26ee analyze_diff_expr.xml
--- a/analyze_diff_expr.xml	Tue Apr 11 19:55:15 2023 +0000
+++ b/analyze_diff_expr.xml	Tue Aug 08 09:05:19 2023 +0000
@@ -217,7 +217,7 @@
 
 You must also provide as a data collection the files resulting from the differential expression analysis (outputs of tool 'Differential expression analysis').
 
-.. _Trinity: http://trinityrnaseq.github.io
+.. _Trinity: https://github.com/trinityrnaseq/trinityrnaseq/wiki
 ]]>
     </help>
     <expand macro="citation" />
diff -r c0096052b35b -r 9871e84c26ee test-data/count/contig_exn50_statistic/Trinity.fasta.gz
Binary file test-data/count/contig_exn50_statistic/Trinity.fasta.gz has changed
diff -r c0096052b35b -r 9871e84c26ee test-data/count/trinityStats/statsfile.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/count/trinityStats/statsfile.txt	Tue Aug 08 09:05:19 2023 +0000
@@ -0,0 +1,40 @@
+
+
+################################
+## Counts of transcripts, etc.
+################################
+Total trinity 'genes':	7
+Total trinity transcripts:	7
+Percent GC: 42.12
+
+########################################
+Stats based on ALL transcript contigs:
+########################################
+
+	Contig N10: 541
+	Contig N20: 541
+	Contig N30: 380
+	Contig N40: 380
+	Contig N50: 279
+
+	Median contig length: 240
+	Average contig: 298.14
+	Total assembled bases: 2087
+
+
+#####################################################
+## Stats based on ONLY LONGEST ISOFORM per 'GENE':
+#####################################################
+
+	Contig N10: 541
+	Contig N20: 541
+	Contig N30: 380
+	Contig N40: 380
+	Contig N50: 279
+
+	Median contig length: 240
+	Average contig: 298.14
+	Total assembled bases: 2087
+
+
+