This app was exported from precisionFDA (
It was created by Marghoob Mohiyuddin, Roche Sequencing.

What’s this?

This app maps Illumina FASTQ reads to the human reference genome (hs37d5 or GRCh37), using BWA-MEM.
The mappings are then sorted, indexed and marked for duplicates using bamsormadup from biobambam2.
The sorted mappings are then processing using FreeBayes to generate a list of variants.

What can it be used for?

Run this app for variant-calling (s

This is a companion discussion topic for the original entry at