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.
Can somebody please confirm why DP in Info and Format fields are different. My assumption is Info field DP (847 in example below ) includes reads that failed Haplotype Caller filter... correct ?
X 31226370 . A C 26706.77 PASS AC=2;AF=1.00;AN=2;DP=847;ExcessHet=3.0103;FS=0.000;GQ=99;MLEAC=2;MLEAF=1.00;MQ=69.97;QD=32.25;SOR=0.843 GT:AD:DP:GQ:PL 1/1:0,828:828:99:26735,2485,0