makeSimData: Generate simulation data

In friend1ws/pmsignature: Extracting characteristic mutation signatures from a set of mutation data.

Description

Generate simulation data

Usage

makeSimData(type = "independent", numBases = 3, trDir = FALSE,
  fdim = NULL, K = 3, sampleNum = 10, mutationNum = 100,
  param_alpha = 1, param_gamma = 1, isBG = FALSE)

Arguments

type	this argument can take either independent, full
numBases	the number of upstream and downstream flanking bases
trDir	the index representing whether transcription direction is considered or not
K	the number of mutation signature
sampleNum	the number of cancer genomes in the simulation data
mutationNum	the number of mutations in each cancer genome
param_alpha	the parameter of the Dirichlet distribution for the sample signature distribution
param_gamma	the parameter of the Diriculet distribution for signature feature distribution
isBG	the logical value showing whether the background signature is used or not

friend1ws/pmsignature documentation built on May 16, 2019, 3:27 p.m.