sigvar
This is the development version of sigvar; to use it, please install the devel version of Bioconductor.
Quantify and visualize variability of mutational signatures within and across samples
Bioconductor version: Development (3.24)
This package allows users to import mutational signature attribution (a.k.a. exposure) matrices and compute, visualize, and test their variabilities within and across samples.
Author: Maike Morrison [aut] 
, Nicolas Alcala [aut, cre] , Worldwide Cancer Research [fnd] (Grant 24-0106), French Ligue Nationale Contre le Cancer [fnd]
Maintainer: Nicolas Alcala <alcalan at iarc.who.int>
citation("sigvar")):Maike Morrison, Nicolas Alcala. sigvar: Quantify and visualize variability of mutational signatures within and across samples. doi:10.18129/B9.bioc.sigvar, R package version 0.99.8, https://bioconductor.org/packages/sigvar.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("sigvar")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("sigvar")| Tutorial | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport, DriverMutation, Software, SomaticMutation, StatisticalMethod, StructuralVariation, Visualization, WholeGenome |
| Version | 0.99.8 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5) |
| Imports | dplyr, readr, ggplot2, rlang, tidyr, stringr, ggh4x, glue, ggtext, ggforce, scales, GenomicFeatures, GenomeInfoDb, BSgenome, Biostrings, rtracklayer, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, lifecycle, withr |
| System Requirements | |
| URL | https://github.com/MaikeMorrison/sigvar |
| Bug Reports | https://github.com/MaikeMorrison/sigvar/issues |
See More
| Suggests | knitr, rmarkdown, testthat (>= 3.0.0), magick, BiocStyle, BSgenome.Hsapiens.UCSC.hg38, PNWColors, cowplot, ggpubr, ggrepel, kableExtra, lsa, patchwork, tidyverse |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | sigvar_0.99.8.tar.gz |
| Windows Binary (x86_64) | sigvar_0.99.8.zip |
| macOS Binary (big-sur-x86_64) | sigvar_0.99.8.tgz |
| macOS Binary (sonoma-arm64) | sigvar_0.99.8.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/sigvar |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/sigvar |
| Package Short Url | https://bioconductor.org/packages/sigvar/ |
| Package Downloads Report | Download Stats |