kevlar-dev / kevlar

Reference-free variant discovery in large eukaryotic genomes
https://kevlar.readthedocs.io
MIT License
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Bring varfilter into Snakemake workflow #329

Closed standage closed 5 years ago

standage commented 5 years ago

If we update the configuration, it should be possible to dynamically detect if a varfilter input file was provided and select input files to the simlike step accordingly. If there is a varfilter input file, run kevlar varfilter and give its output as the input to the simlike step. If not, give all of the preliminary calls from kevlar call as input to simlike.