Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Agilent human exon coverage plots SMO Genomic Resequencing 9 11-25-2012 06:14 AM
Average Read Coverage for 454 paired end read data lisa1102 Core Facilities 8 10-18-2011 08:40 AM
Does Cufflinks support single-end and paired end data together ? ersenkavak Bioinformatics 1 10-22-2010 07:26 AM
overlaying coverage plots zlu Bioinformatics 5 08-23-2010 01:49 AM

Thread Tools
Old 12-12-2011, 01:59 AM   #1
Junior Member
Location: Edinburgh

Join Date: Jun 2009
Posts: 7
Default Coverage plots for paired end data

We have been creating coverage plots from chip-seq bam files using tools such as genomeCoverageBed or bamToBigWig. With single end chip-seq data we have not been extending read length to an inferred fragment size. However with paired end data it seems to make sense to do this if you have good quality pairs.

Are there any coverage plotting tools that will do this automatically? I.e look at aligned pairs and output coverage including the region between each.
swebb is offline   Reply With Quote

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 09:45 AM.

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