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marbl / Winnowmap

Long read / genome alignment software
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kmer size for meryl #5

Closed mrvollger closed 3 years ago

mrvollger commented 3 years ago

I noticed that the suggested kmer size for merly (k=15) in the README matches the map-ont preset (at least according to the minimap2 man page); however, it does not match the map-pb preset (k=19). Is this intended? I just expected that the kmer sizes would need to be matched to the preset.

Thanks! Mitchell

cjain7 commented 3 years ago

Yes it is intended. map-pb options in winnowmap also use k=15 (instead of 19)

mrvollger commented 3 years ago

Thanks!