kapsakcj / nanoporeWorkflow

:dna: Shell scripts for working with bacterial isolate Nanopore sequence data on CDC servers
MIT License
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set filtlong to exclude reads below 500bp instead of 1kb #14

Closed kapsakcj closed 4 years ago

kapsakcj commented 4 years ago

For datasets that have a mean or median read length less than or equal to 1000 bp, it's possible for a LOT of data to get excluded in the filtlong/prepsample step, resulting in poorer assemblies.

This will help for samples where there is already a low amount of data to begin with, and that have a mean/median read length at or below 1kb.