This app was exported from precisionFDA (
It was created by Justin Zook, NIST.


Call germline SNPs and indels via local re-assembly of haplotypes.

Offical documentation:

Modified to use GRCh37 with hs37d5 reference

Filter using default hard filters recommended by GATK best practices:

SNPS: --filterExpression "QD < 2.0 ||

This is a companion discussion topic for the original entry at