resolveMutSignatures: Resolve Mutation Signatures.

In mutSignatures: Decipher Mutational Signatures from Somatic Mutational Catalogs

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

Details

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

Value

a list of objects including data about exposures to mutational signatures

Author(s)

Damiano Fantini, [e-mail]

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

    x <- mutSignatures:::getTestRunArgs("resolveMutSignatures")
    y <- mutSignatures::resolveMutSignatures(mutCountData = x$muts, signFreqData = x$sigs)
    y

mutSignatures documentation built on Nov. 9, 2020, 9:06 a.m.