getMatrix: panConusig::getMatrix

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

panConusig::getMatrix

Description

Function that categorises segments into 48 copy number classes, and generates an input matrix for matrix deconvolution. Segments are categorised by LOH status (homozygous deletion, loss of heterozygosity, heterozygous), total copy number (0, 1, 2, 3-4, 5-8, 9+) and segment size (0-100kb, 100kb-1Mb, 1Mb-10Mb, 10Mb-40Mb,>40Mb).

Usage

getMatrix(data)

Arguments

data	Matrix. CN profile segments, with columns sample, chr, start pos, endpos, nMajor, nMinor.

Value

48xs matrix of CN summaries, where s is the number of samples in data.

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