create_mut_catalogues: Creates simulated mutational catalogues

In SigsPack: Mutational Signature Estimation for Single Samples

Description

Creates mutational catalogues from chosen mutational signature profiles to gain simualted data sampled from a distirbution with with known signature contribution

Usage

create_mut_catalogues(n, m, P = get(utils::data("cosmicSigs", package =
  "SigsPack")), sig_set = NULL, c_exposure = NULL)

Arguments

n	Amount of mutational catalogues that will be created
m	Amount of mutations that each catalogues will have
P	Matrix (f x k) containing the signature profiles of k signatures which will be used to create the catalogues k is the amount of signature profiles that P contains f is the amount of features that the profiles are defined on (default: COSMIC signature matrix 96 x 30) (optional)
sig_set	Numeric vector containing the index of the columns from P (which are the signature profiles) that will be used to create the catalogues (optional). Defaults to all columns of P.
c_exposure	Numeric vector specifying the contribution of each signature to the distribution each sample is drawn from. Samples will have an appr. exposure of c_exposure[idx] to signature sig_set[idx] (if sum(c_exposure)==1). (optional) Default: random exposure.

Value

List containing a matrix (f x n) with the simulated catalogues and a matrix (k x n) detailing the signature exposure of each catalogue

Examples

data(cosmicSigs)
sim_data <- create_mut_catalogues(10, 300, cosmicSigs, c(2,6,15,27))
sim_data <- create_mut_catalogues(1000, 500)
sim_data <- create_mut_catalogues(1, 500, sig_set = c(1,4,29), c_exposure = c(0.25, 0.65, 0.1))

SigsPack documentation built on Nov. 8, 2020, 6:57 p.m.