deconstructSigs_runner: Computes exposures by the deconstructSigs method

In eyzhao/msimR: Simulation of Somatic Single Nucleotide Variant Count Vectors for Mutation Signature Analysis

Description

deconstructSigs is a method for computing n-of-1 mutation signatures reported in Genome Biology (https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0893-4) and implemented as a package on CRAN (https://cran.rstudio.com/web/packages/deconstructSigs/index.html).

Usage

deconstructSigs_runner(simulated_data)

Arguments

simulated_data

Simulated data object obtained by simulate_signatures.

Details

This method runs deconstructSigs on a simulated data object and returns the associated signature exposures. Because deconstructSigs employs its own feature selection, any signature with a non-zero exposure value is considered to be a contributor to the mutation burden. Thus, this method calls a signature present if there is at least one mutation contributed by that signature.

Value

A list containing a table of signature exposures and the name of the method used.

eyzhao/msimR documentation built on June 6, 2019, 7:53 a.m.