The Microsoft Genomics service in Azure is a cloud-based implementation of the Burrows-Wheeler Aligner (BWA) and the Genome Analysis Toolkit (GATK) for alignment and variant calling. This service came was released a few years ago and currently provides a Python 2.7 CLI to submit workflows. This software takes in either a pair of .FASTQs or a .BAM file and outputs a .VCF based on a human reference genome of your choice.

A benefit of this service is that it provides access to this automated pipeline at a low cost ($1 for the first 10 Gigabases +$0.10/Gb after that) and is…



Colby T. Ford, PhD

Computational Biomathematician and Cloud AI Guy. I research machine learning and genomics and I sometimes write things here.

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