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fedarko / strainFlye

Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
BSD 3-Clause "New" or "Revised" License
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Additional minimap2 parameters that are useful for HiFi data #29

Open fedarko opened 2 years ago

fedarko commented 2 years ago

The set that flye uses may be a good reference. In particular, -L and -Q are both no-brainers that would be good to add in.

https://github.com/fenderglass/Flye/blob/192de706210a96768eb69eed778fe1b81e887165/flye/polishing/alignment.py#L246-L267