Skip to content

Instantly share code, notes, and snippets.

Last active November 3, 2016 17:28
  • Star 0 You must be signed in to star a gist
  • Fork 0 You must be signed in to fork a gist
Star You must be signed in to star a gist
What would you like to do?
bcbio CWL talk at BIG meeting, Nov 3 2016

Blue Collar Bioinformatics (bcbio; is community developed methods for variant calling, RNA-seq, small RNA and other biological analyses. We work together to build openly available, practical, validated tools for working with high throughput sequencing data.

At the MIT BIG meeting I'll discuss ongoing work to replace the infrastructure components of bcbio with the Common Workflow Language (CWL This allows integration of bcbio developed pipelines with multiple open source and commercial products. The goal is to improve how projects work together, giving bcbio users multiple infrastructure and hardware options including local HPC and multiple cloud vendors like AWS, Google Cloud and Microsoft Azure. Our ongoing work includes integration with these platforms:

I'll talk about the ongoing challenges of migrating to CWL and supporting bcbio development at the Harvard Chan Bioinformatics core (

You're welcome to attend in person at MIT if you're in the Boston area. The presentation will also be online through Zoom for remote participation.

Topic: MIT BIG meeting: bcbio and CWL (
Time: Nov 3, 2016 11:00 AM (GMT-4:00) Eastern Time (US and Canada)
Location: MIT Koch Biology Building 68-156 ( or online
On Telephone: +1 646 558 8656 (US Toll) or +1 408 638 0968 (US Toll) International numbers available:
Meeting ID: 191 593 233
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment