SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Using GATK's local realigner outside of GATK pipeline for variant calling NikTuzov Bioinformatics 1 09-08-2015 08:41 AM
Calling SNPs from RNAseq bam files jmwhitha Bioinformatics 7 10-15-2014 04:16 AM
calling variants using GATK kjaja Bioinformatics 0 03-19-2013 10:39 AM
GATK UnifiedGenotyper not calling any variants krobasky Bioinformatics 7 10-25-2012 10:19 PM
GATK calling Merged Bam files jayce_ocean Bioinformatics 3 03-16-2011 12:15 AM

Reply
 
Thread Tools
Old 07-19-2017, 11:13 AM   #1
memento
Member
 
Location: UK

Join Date: Nov 2010
Posts: 49
Default RNAseq bam to variants calling (GATK, Mutect1/2

Has anyone prepped rnaseq bam files for mutect/gatk? i found some pdf with pipeline schematics, but could not understand step by step prep. what are tools/settings needed to preprocess bam for mutect/gatk pipeline ?
thanks!
memento is offline   Reply With Quote
Reply

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 11:10 AM.


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