selectKSigs
This is the development version of selectKSigs; for the stable release version, see selectKSigs.
Selecting the number of mutational signatures using a perplexity-based measure and cross-validation
Bioconductor version: Development (3.20)
A package to suggest the number of mutational signatures in a collection of somatic mutations using calculating the cross-validated perplexity score.
Author: Zhi Yang [aut, cre], Yuichi Shiraishi [ctb]
Maintainer: Zhi Yang <zyang895 at gmail.com>
Citation (from within R, enter
citation("selectKSigs")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("selectKSigs")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("selectKSigs")
An introduction to HiLDA | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Clustering, Sequencing, Software, SomaticMutation, StatisticalMethod |
Version | 1.17.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
License | GPL-3 |
Depends | R (>= 3.6) |
Imports | HiLDA, magrittr, gtools, methods, Rcpp |
System Requirements | |
URL | https://github.com/USCbiostats/selectKSigs |
Bug Reports | https://github.com/USCbiostats/HiLDA/selectKSigs |
See More
Suggests | knitr, rmarkdown, testthat, BiocStyle, ggplot2, dplyr, tidyr |
Linking To | Rcpp |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | selectKSigs_1.17.0.tar.gz |
Windows Binary (x86_64) | selectKSigs_1.17.0.zip |
macOS Binary (x86_64) | selectKSigs_1.17.0.tgz |
macOS Binary (arm64) | selectKSigs_1.17.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/selectKSigs |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/selectKSigs |
Bioc Package Browser | https://code.bioconductor.org/browse/selectKSigs/ |
Package Short Url | https://bioconductor.org/packages/selectKSigs/ |
Package Downloads Report | Download Stats |