Description Usage Arguments Details Value Author(s) References Examples
View source: R/s03_all_functions.R
Convert Mutation COunts to frequencies. Typically, a permille frequence is returned. In other words, the resulting number indicates the expected mutation count if the genome hat a total of 1000 mutations. This way, the MutSignatures analysis will be less biased toward the hyper-mutator samples.
1 | frequencize(countMatrix, permille = TRUE)
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countMatrix |
numeric matrix of mutation counts |
permille |
ligucal, shall the permille conversion be used instead of the standard frequency |
This function is part of the user-interface set of tools included in mutSignatures. This is an exported function.
list including colSums (mutation burden of each sample) and freqs (matrix of frequencies)
Damiano Fantini, damiano.fantini@gmail.com
More information and examples about mutational signature analysis can be found here:
GitHub Repo: https://github.com/dami82/mutSignatures/
More info and examples about the mutSignatures R library: https://www.data-pulse.com/dev_site/mutsignatures/
Sci Rep paper, introducing mutS: https://www.nature.com/articles/s41598-020-75062-0/
Oncogene paper, Mutational Signatures Operative in Bladder Cancer: https://www.nature.com/articles/s41388-017-0099-6
1 2 3 4 | A <- cbind(c(7, 100, 90, 1000), c(1, 3, 5, 9))
fA <- mutSignatures::frequencize(A)
fA$freqs
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