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WDLs

Illumina reads alignment

bwa_mem2.wdl

ONT reads alignment

minimap2_ubam.wdl

  • starting with unaligned bams and saving methylation tags

minimap2_fastq.wdl

  • starting with fastqs

additional args:

-k 17 -y -K 5G --eqx

HiFi reads alignment

pbmm2.wdl

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