Go Back   SEQanswers > Applications Forums > RNA Sequencing

Similar Threads
Thread Thread Starter Forum Replies Last Post
Identifying Single Copy Human Genes jgibbons1 Bioinformatics 5 03-01-2015 05:15 PM
New Ribo-Zero Gold Kit (Human/Mouse/Rat) epibio Vendor Forum 7 08-01-2014 01:35 PM
Comparing mouse and human differentially expressed genes stephenhart General 3 11-16-2011 02:14 AM
Identifying human disease SNPs BetterPrimate Bioinformatics 1 11-05-2010 06:40 AM

Thread Tools
Old 07-03-2013, 10:11 AM   #1
Location: US

Join Date: Oct 2011
Posts: 47
Default identifying common reads between mouse and human alignments


I have some rnaseq data from xenograft models. I am aligning the reads to human genome and mouse genome separately.

the idea is to throw the reads that are mapped to both human and mouse. How can I achieve this? How can I identify reads that are common to both the human and mouse genome when I run tophat (humanaligned.bam) and mousealigned.bam), then discard these reads and then create a file called "humanminuscommonreads.bam" for the rest of the analysis steps?

Please help.
angerusso is offline   Reply With Quote

mixed mouse human reads

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 05:27 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO