From 34c0cad41d92879d9b95a66c9d687d11b1608b05 Mon Sep 17 00:00:00 2001 From: Immanuel Purushothaman Date: Fri, 10 Jan 2014 11:14:13 -0500 Subject: [PATCH] Simplifies #5, outputs broad overview of mapped reads --- src/quality_control.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/quality_control.py b/src/quality_control.py index 82bddec..06e4576 100644 --- a/src/quality_control.py +++ b/src/quality_control.py @@ -87,7 +87,7 @@ def gatherReport(self): #computes rates ## change name to pass sample name to method - sample = "Name" + +"\t"+ totalReads+"\t"+st(self.rawReads.mappedTotal)+"\t"+str(self.rawReads.mitochondrial())+"\t"+str(self.rawReads.ribosomal())"\t"+st(mapping)+"\t"+str(chrMTrate)+"\t"+str(rRNArate)+"\n" + sample = "Name" +"\t"+ totalReads+"\t"+str(self.rawReads.mappedTotal)+"\t"+str(self.rawReads.mitochondrial())+"\t"+str(self.rawReads.ribosomal())+"\t"+str(mapping)+"\t"+str(chrMTrate)+"\t"+str(rRNArate)+"\n" #sample = "Name" + "\t" + str(mapping) +"\t"+ str(intragenic)+ "\t" + str(exonic) + "\t" + str(intronic) + "\t"+ str(intragenic) + "\t" + str(rRNArate)+"\t"+str(chrMTrate) + "\n" return sample