The current GATK version is 3.7-0
Examples: Monday, today, last week, Mar 26, 3/26/04

Howdy, Stranger!

It looks like you're new here. If you want to get involved, click one of these buttons!

Powered by Vanilla. Made with Bootstrap.
GATK 3.7 is here! Be sure to read the Version Highlights and optionally the full Release Notes.
Register now for the upcoming GATK Best Practices workshop, Feb 20-22 in Leuven, Belgium. Open to all comers! More info and signup at http://bit.ly/2i4mGxz

Overlapping INDEL calls

lpryszczlpryszcz Member Posts: 3

Hi,

I have noticed, sometimes GATK UnifiedGenotyper calls overlapping INDELs even though there should be 3 non-overlapping (independent) calls.

image

I have attached 200bp region from my BAM, reference and vcf file, so you can reproduce this issue.

Cheers,
Leszek

tgz
tgz
test.tgz
134K
test.igv.png
1680 x 893 - 28K

Best Answer

Answers

Sign In or Register to comment.