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Improve cnvkit tumor_only mode

Open maxulysse opened this issue 3 months ago • 1 comments

tumor_only mode does not need fasta & target instead a pre-computed reference.cnn may be supplied which is built from fasta & target

out of this PR scope

Originally posted by @maxulysse in https://github.com/nf-core/sarek/pull/1965#discussion_r2341014307

maxulysse avatar Sep 11 '25 14:09 maxulysse

Also we should support VCF output for CNVkit.

famosab avatar Sep 23 '25 14:09 famosab