sigminer (version 1.0.6)

get_sig_exposure: Get Signature Exposure from 'Signature' Object

Description

Get Signature Exposure from 'Signature' Object

Usage

get_sig_exposure(
  Signature,
  type = c("absolute", "relative"),
  rel_threshold = 0.01
)

Arguments

Signature

a Signature object obtained either from sig_extract or sig_auto_extract, or just a raw exposure matrix with column representing samples (patients) and row representing signatures.

type

'absolute' for signature exposure and 'relative' for signature relative exposure.

rel_threshold

used when type is 'relative', relative exposure less than this value will be set to 0 and the remaining signature exposure will be scaled to make sum as 1 accordingly. Of note, this is a little different from the same parameter in sig_fit.

Value

a data.table

Examples

# NOT RUN {
# Load mutational signature
load(system.file("extdata", "toy_mutational_signature.RData",
  package = "sigminer", mustWork = TRUE
))
# Get signature exposure
expo1 <- get_sig_exposure(sig2)
expo1
expo2 <- get_sig_exposure(sig2, type = "relative")
expo2
# }