Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Quality score after Illumina run - should it be coverted before samtools and gatk? gfmgfm Bioinformatics 9 08-31-2013 11:01 PM
GATK 'Variant quality score recalibration' for shallow coverage jorge Bioinformatics 2 03-30-2012 05:08 AM
GATK snp calling wanguan2000 Bioinformatics 0 11-24-2011 09:23 PM
GATK: Base quality score recalibration fabrice Bioinformatics 2 11-05-2011 04:54 AM
Different MAPPING QUALITY/PER-BASE QUALITY SCORE m_elena_bioinfo Bioinformatics 2 09-02-2010 10:00 AM

Thread Tools
Old 09-25-2010, 12:19 PM   #1
Location: US

Join Date: May 2010
Posts: 54
Default What cut off does GATK snp calling use for mapping quality score?

Does anyone know what mapping quality score cutoff does GATK uses when doing SNP calls? I looked at their website, they didn't mention it.

foxyg 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 09:09 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO