runAssignment: panConusig::runAssignment

In UCL-Research-Department-of-Pathology/panConusig: Pan-cancer copy number signatures analysis

panConusig::runAssignment

Description

Takes copy number profiles, signature assignments per sample, and signature definitions, to assign signatures at a segment level.

Usage

runAssignment(data, # matrix of copy number profiles with columns sample, chr, startpos, endpos, nMajor, nMinor
                         sigs, # matrix of 48xn where n is the number of signatures
                         exposures, # matrix of n*m where n is the number of signatures, and m is the number of samples
                         outDir = NULL)

Arguments

data	Matrix of copy number profiles with columns sample, chr, startpos, endpos, nMajor, nMinor.
sigs	Matrix of 48xn where n is the number of signatures
exposures	Matrix of n*m where n is the number of signatures, and m is the number of samples
outDir	Directory to save results to.

Value

Matrix that includes combines data with new columns: the copy number class for each segment in data, and the copy number signature assignment for each segment in data.

UCL-Research-Department-of-Pathology/panConusig documentation built on March 25, 2022, 12:18 a.m.