SomaticSignatures
Somatic Signatures
Bioconductor version: 3.23 · Package version: 2.48.0
The SomaticSignatures package identifies mutational signatures of single nucleotide variants (SNVs). It provides a infrastructure related to the methodology described in Nik-Zainal (2012, Cell), with flexibility in the matrix decomposition algorithms.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SomaticSignatures")Details
| Maintainer | Julian Gehring <jg-bioc@gmx.com> |
| Author | Julian Gehring |
| License | MIT + file LICENSE |
| URL | https://github.com/juliangehring/SomaticSignatures |
| Bug Reports | https://support.bioconductor.org |
| Downloads rank | 677 |
| Source branch | RELEASE_3_23 |
| biocViews | Clustering, GenomicVariation, Sequencing, Software, SomaticMutation, StatisticalMethod, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | SomaticSignatures_2.48.0.tar.gz |
| Windows binary (x86_64) | SomaticSignatures_2.48.0.zip |
| macOS binary (x86_64) | SomaticSignatures_2.48.0.tgz |
Dependencies
Depends: R (>= 3.5.0), VariantAnnotation, GenomicRanges, NMF
Imports: S4Vectors, IRanges, Seqinfo, Biostrings, ggplot2, ggbio, reshape2, NMF, pcaMethods, Biobase, methods, proxy
Suggests: testthat, knitr, parallel, GenomeInfoDb, BSgenome.Hsapiens.1000genomes.hs37d5, SomaticCancerAlterations, ggdendro, fastICA, sva
Reverse dependencies
Imports Me (1): YAPSA