Align an ONT Guppy6.1.2 basecalled unaligned bam with Remora methyl tags (Mm,Ml) and return a sorted bam file along with it’s index (.bai) file. Task uses samtools to convert the unalinged bam into a fastq and piped into minimap2 with hardcoded arguments. Based off wdl-workflows/workflow.wdl at master · jmonlong/wdl-workflows · GitHub
This is a companion discussion topic for the original entry at github.com/meredith705/ont_methylation/methylTaggedReadsMinimap2