GATK-for-Primates: GATK Best Practices for Variant Calling in Non-Human Primate Genomes (pre-alpha)

This repo is NOT ready for use yet and still under development!!

A reproducible pipeline for germline SNP and Indel variant calling in non-human primate whole-genome re-sequencing data.

This pipeline is in the pre-alpha stage of development. Please do not use this pipeline until we have completed initial benchmarking. Once we see promising results with sensitivity and precision, we’ll

This is a companion discussion topic for the original entry at