fitCustomMutSigs: Performs mutational signature fitting against a pre-defined...

In J0bbie/R2CPCT: Misc. functions to perform import and analysis of WGS and RNA-Seq samples

Description

Performs mutational signature fitting against a pre-defined list of (custom) motif matrixes.

Usage

fitCustomMutSigs(dataMuts, motifMatrix, sigType = "SBS")

Arguments

dataMuts	(VRanges): VRanges containing the mutations which will used as input.
motifMatrix	(tibble): Mutational motif matrix, with a column termed 'Motif' and then x columns designating the signatures.
sigType	(character): What type of signature should be looked for (motif matrix should match).

Details

Users need to supply a motif matrix (SNV-only), the names of the columns (signatures) will be used a aetiology.

Value

(list) Returns a list of relevant mutational signature output.

Examples

 data.Cohort <- R2CPCT::importWGSOfCohort(<cpctIds>, <combinedData>)
 data.MutSigs <- R2CPCT::fitMutSigs(data.Cohort$somaticVariants, motifMatrix)

J0bbie/R2CPCT documentation built on Feb. 24, 2022, 8:15 a.m.