Bioconductor - SomaticSignatures
Bioconductor 3.22
Software Packages
SomaticSignatures
SomaticSignatures
This is the
released
version of SomaticSignatures; for the devel version, see
SomaticSignatures
Somatic Signatures
DOI:
10.18129/B9.bioc.SomaticSignatures
Bioconductor version:
Release (3.22)
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.
Author:
Julian Gehring
Maintainer:
Julian Gehring
Citation (from within R, enter
citation("SomaticSignatures")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SomaticSignatures")
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("SomaticSignatures")
SomaticSignatures
HTML
R Script
Reference Manual
PDF
NEWS
Text
LICENSE
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
Clustering
GenomicVariation
Sequencing
Software
SomaticMutation
StatisticalMethod
Visualization
Version
2.46.0
In Bioconductor since
BioC 2.14 (R-3.1) (12 years)
License
MIT + file
LICENSE
Depends
R (>= 3.5.0),
VariantAnnotation
GenomicRanges
NMF
Imports
S4Vectors
IRanges
Seqinfo
Biostrings
ggplot2
ggbio
reshape2
NMF
pcaMethods
Biobase
, methods,
proxy
System Requirements
URL
Bug Reports
See More
Suggests
testthat
knitr
, parallel,
GenomeInfoDb
BSgenome.Hsapiens.1000genomes.hs37d5
SomaticCancerAlterations
ggdendro
fastICA
sva
Linking To
Enhances
Depends On Me
Imports Me
YAPSA
Suggests Me
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
SomaticSignatures_2.46.0.tar.gz
Windows Binary (x86_64)
SomaticSignatures_2.46.0.zip
(64-bit only)
macOS Binary (x86_64)
SomaticSignatures_2.46.0.tgz
macOS Binary (arm64)
Source Repository
git clone https://git.bioconductor.org/packages/SomaticSignatures
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/SomaticSignatures
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