Missing kmer when using GSNAP in compare/README?

brentp / bwa-meth

fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome

https://arxiv.org/abs/1401.1129

MIT License

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Closed PeteHaitch closed 10 years ago

PeteHaitch commented 10 years ago

lines 44-45

GSNAP:
    python src/gsnap-meth.py index $REF

I think there needs to be a kmer size specified in this command following $REF. What kmer size have you used?