mutSignatures (version 1.2)

removeWeak: Remove Mutation Types Not Meeting the Threshold

Description

Remove mutation types that account for a total number of mutations below a defined threshold.

Usage

removeWeak(input.mutCounts, params)

Arguments

input.mutCounts

numeric matrix of Mutation Counts

params

object (list) including all parameters required for running the analysis

Value

list including two elements

removed.mutset

numeric vector including the ids of the removed rows. If removed.mutset == -1, no rows were removed

output.mutCounts

filtered Mutation Count matrix

References

More info at: http://www.biotechworld.it/bioinf/2017/01/22/mutsignatures/

Examples

# NOT RUN {
tmp <- getTestRunArgs()
removeWeak(input.mutCounts = tmp$mutCount.obj$mutCounts, params = tmp$params)
# }