A comprehensive, opinionated plant variant calling pipeline in Snakemake
Project description
Acanthophis
A reusable, comprehensive, opinionated plant variant calling pipeline in Snakemake
Until I write the documentation, please see the example workflow. It should contain a fully working example workflow.
About & Authors
This is an amalgamation of several pipelines developed between the Weigel Group, MPI DB, Tübingen, DE, the Warthmann Group, IAEA/FAO PBGL, Seibersdorf, AT and the Borevitz Group, ANU, Canberra, AU. This amalgamation authored by Dr. K. D. Murray, original code primary by K. D. Murray, Norman Warthmann, and Ilja Bezrukov, with contributions from others at the aforementioned institutes.
TODO:
- break out more freebayes parameters to the config file
-
acanthophis initto generate boilerplate
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