UCSC-Treehouse / pipelines

Makefiles to run dockerized pipelines used in Treehouse on a single sample
Apache License 2.0
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Major upgrade including variant, bug fixes, and better documentation #4

Closed rcurrie closed 6 years ago

rcurrie commented 6 years ago

Merging the branch we run inside treehouse into master as its been baking for a while. Changes from the current master include support for variant calling and better documentation for Makefile users. If you're adventurous you can use the include fabfile.py which is used internal to treehouse to run multiple samples on a cluster managed by openstack. Caveat is this code has a ton of entropy so use only if you understand fabric, docker-machine, and python.