Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Problems with Picard metrics file cristinavalente Bioinformatics 0 05-11-2013 02:19 AM
QC metrics for RNAseq data from 5500xl fatakias Bioinformatics 4 03-30-2012 03:30 AM
Problem with QC metrics froggins Bioinformatics 2 07-27-2011 09:50 AM
Error message from QC metrics froggins The Pipeline 1 01-05-2011 06:53 AM
Metrics for usability of a SOLiD dataset pmiguel SOLiD 5 10-13-2008 10:41 PM

Thread Tools
Old 07-03-2013, 12:28 PM   #1
Junior Member
Location: New York

Join Date: Jan 2012
Posts: 9
Default interpret GC bias metrics from Picard


I am working with a RNA-seq dataset (human samples), and am generating many "metrics" from Picard to check quality. Picard has a tool "CollectGCBiasMetrics", which calculate the normalized coverage for each GC% bin. According to the manual, the normalized coverage is compared to overall coverage (which is 1). My question is, how does one interpret the normalized coverage? That is, what should we expect? What's the reasonable range for this metric? I appreciate any input!

bjchen is offline   Reply With Quote

coverage, gc content, picard, rnaseq

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 10:11 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO