rule all edited to add bam2bw outputs

CCBR · Aug 27, 2019 · d667ab5 · d667ab5
1 parent 7337e36
commit d667ab5
Showing 1 changed file with 10 additions and 0 deletions.
diff --git a/Rules/initialqcrnaseq.snakefile b/Rules/initialqcrnaseq.snakefile
@@ -73,6 +73,10 @@ if pe=="yes":
         # STAR
         expand(join(workpath,bams_dir,"{name}.p2.Aligned.toTranscriptome.out.bam"),name=samples),
 
+        # Deeptools
+        expand(join(workpath,bams_dir,"{name}.fwd.bw")),
+		expand(join(workpath,bams_dir,"{name}.rev.bw")),
+
         # Picard
         expand(join(workpath,log_dir,"{name}.RnaSeqMetrics.txt"),name=samples),
         expand(join(workpath,log_dir,"{name}.star.duplic"),name=samples),
@@ -383,6 +387,12 @@ if se=="yes":
         # QualiMap
         # join(workpath,"QualiMap","GlobalReport.html"),
 
+
+        # Deeptools
+        expand(join(workpath,bams_dir,"{name}.fwd.bw")),
+		expand(join(workpath,bams_dir,"{name}.rev.bw")),
+
+
         # RSEM
         join(workpath,degall_dir,"RSEM.genes.FPKM.all_samples.txt"),
         join(workpath,degall_dir,"RSEM.isoforms.FPKM.all_samples.txt"),