Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
ReadBackedPhasing missed calls
I found a few calls which were missed or wrongly called by ReadBackedPhasing tool.
I used the latest version of GATK3 (GenomeAnalysisTK-3.8-1-0-gf15c1c3ef).
Are there any ways to fix them?
chr7 140453136 . AC TT . PASS AC=1;AF=0.500;AN=2 GT:HP:PQ 0/1:140453136-1,140453136-2:16034.57
chr11 108150313 . CTCA TTCG . PASS AC=1;AF=0.500;AN=2 GT:HP:PQ 0/1:108150313-1,108150313-2:6123.96