deconvoluteMutCounts {mutSignatures} | R Documentation |
Deconvolute Mutation Counts.
Description
Characterize mutational signatures from cancer-derived somatic mutational catalogs.
Usage
deconvoluteMutCounts(input_mutCounts, params)
Arguments
input_mutCounts |
numeric matrix of Mutation Type Counts |
params |
list including all parameters required for running the analysis |
Details
This is one of the core functions included in the original mutSignatures R library, and in the WTSI MATLAB framework. This is an internal function.
Value
list including all the results from the deconvolution analysis. This function is called within thedecipherMutationalProcesses() function after parameters and input data have been validated
Author(s)
Damiano Fantini, damiano.fantini@gmail.com
References
More information and examples about mutational signature analysis can be found here:
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GitHub Repo: https://github.com/dami82/mutSignatures/
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More info and examples about the mutSignatures R library: https://www.data-pulse.com/dev_site/mutsignatures/
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Sci Rep paper, introducing mutS: https://www.nature.com/articles/s41598-020-75062-0/
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Oncogene paper, Mutational Signatures Operative in Bladder Cancer: https://www.nature.com/articles/s41388-017-0099-6
WTSI framework: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3588146/
Examples
x <- mutSignatures:::getTestRunArgs("deconvoluteMutCounts")
y <- mutSignatures:::deconvoluteMutCounts(input_mutCounts = as.matrix(x$muts),
params = as.list(x$params))
y$processes[1:10,]