mutationalCone: Refit spectra using MutationalCone

In mskcc/tempoSig: Maximum Likelihood Fitting of Mutational Catalogs and De Novo Inference of Signatures

Refit spectra using MutationalCone

Description

Given input spectra, find proportions of known signatures

Usage

mutationalCone(catalog, signatures = "cosmic_v3", normalize = FALSE)

Arguments

catalog	Input matrix of dimension (M, N), where M is the no. of genetic features, e.g., 96 for SNV trinucleotides) and N is the number of samples to refit
signatures	Matrix of dimension (M,K) with K reference signatures in columns (e.g., COSMIC signatures).
normalize	Normalize output column-wise

Details

Adopted from Omichessan et al. http://dx.doi.org/10.1371/journal.pone.0221235.

Value

Matrix of dimension (K, N) with columns giving estimated loading of signatures in each sample.

mskcc/tempoSig documentation built on Feb. 3, 2023, 8:35 a.m.