Arcadia-Science / metagenomics

A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies
MIT License
34 stars 2 forks source link

Swap polishing tool racon for medaka #47

Closed elizabethmcd closed 1 year ago

elizabethmcd commented 1 year ago

Swaps out polishing tool racon for medaka since in-house we like medaka better for polishing metagenomes and seems to be less fussy about mapping file formats needed In the past when I have used medaka I've used GPUs and it goes super quick, but maybe want to keep an eye when doing full-sized tests how long that takes.