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selectKSigs

Selecting the number of mutational signatures using a perplexity-based measure and cross-validation

Bioconductor version: 3.23 · Package version: 1.24.0

A package to suggest the number of mutational signatures in a collection of somatic mutations using calculating the cross-validated perplexity score.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("selectKSigs")

Details

MaintainerZhi Yang <zyang895@gmail.com>
AuthorZhi Yang [aut, cre], Yuichi Shiraishi [ctb]
LicenseGPL-3
URLhttps://github.com/USCbiostats/selectKSigs
Bug Reportshttps://github.com/USCbiostats/HiLDA/selectKSigs
Downloads rank210
Source branchRELEASE_3_23
biocViewsClustering, Sequencing, Software, SomaticMutation, StatisticalMethod

Documentation

Download

Dependencies

Depends: R (>= 3.6)

Imports: HiLDA, magrittr, gtools, methods, Rcpp

LinkingTo: Rcpp

Suggests: knitr, rmarkdown, testthat, BiocStyle, ggplot2, dplyr, tidyr