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iqbal-lab-org / clockwork

CRyPTIC data processing pipelines
MIT License
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Add option to change gramtools kmer length in var call pipeline #34

Open martinghunt opened 6 years ago

iqbal-lab commented 6 years ago

Ideas for what this could be called:

--map_seed <integer between 1 and 20> gramtools stores a mapping from seeds/kmers in the graph to suffix-array intervals, to accelerate quasimapping (purely performance, identical results). Longer seeds cost more RAM but accelerate quasimapping.

--sa_index_cache ...same text here...

iqbal-lab commented 6 years ago

cc-ing everyone