does mutect2 need bam files as input

Kurt-Hetrick / CIDR_SOMATIC_WES_PIPELINES

currently for paired tumor - normal WES samples processed with TWIST UMIs

MIT License

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does mutect2 need bam files as input #6

Closed Kurt-Hetrick closed 1 year ago

Kurt-Hetrick commented 1 year ago

if so, that would suck as they can't be treated as an intermediate file for analysis (which can be deleted after a successful qc run) and thus need to be kept online for duration of a project.

Kurt-Hetrick commented 1 year ago

cram files can be used as input, so not an issue.