Include mutation signature analysis in the variant calling pipeline
|Reported by:||Nicklas Nordborg||Owned by:||Nicklas Nordborg|
A mutation signature can be calculated from the filtered variants VCF. See https://cancer.sanger.ac.uk/cosmic/signatures_v2
The calculations are done with an R script and generate PDF plot and a text file with a score for each of 30 signature patterns.
The R script should be included in the variant call script and the pdf and text file should be stored and attached to the rawbioassay item together with the existing VCF files. The scores should be imported to annotations: