mutSignatures (version 2.1.1)

resolveMutSignatures: Resolve Mutation Signatures.

Description

If Mutation signatures are known (such as COSMIC signatures), we can estimate the contribution of each signature in different samples. This functions used a matrix of mutation counts and a matrix of mutation signatures, and estimates Exposures to Mutational Signature of each sample.

Usage

resolveMutSignatures(mutCountData, signFreqData, byFreq = TRUE)

Arguments

mutCountData

object storing mutation counts

signFreqData

object storing mutation signatures

byFreq

logical, shall exposures be estimated on per_mille normalized counts

Value

a list of objects including data about exposures to mutational signatures

Details

This function is part of the user-interface set of tools included in mutSignatures. This is an exported function.

References

More information and examples about mutational signature analysis can be found here:

1. GitHub Repo: https://github.com/dami82/mutSignatures/

2. More info and examples about the mutSignatures R library: https://www.data-pulse.com/dev_site/mutsignatures/

3. Sci Rep paper, introducing mutS: https://www.nature.com/articles/s41598-020-75062-0/

4. Oncogene paper, Mutational Signatures Operative in Bladder Cancer: https://www.nature.com/articles/s41388-017-0099-6

Examples

# NOT RUN {
    x <- mutSignatures:::getTestRunArgs("resolveMutSignatures")
    y <- mutSignatures::resolveMutSignatures(mutCountData = x$muts, signFreqData = x$sigs)
    y


# }