To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("SomaticSignatures")

In most cases, you don't need to download the package archive at all.

SomaticSignatures

Somatic Signatures

Bioconductor version: Release (2.14)

The SomaticSignatures package identifies mutational signatures of single nucleotide variants (SNVs).

Author: Julian Gehring, with contribution of Bernd Fischer (EMBL Heidelberg)

Maintainer: Julian Gehring <julian.gehring at embl.de>

Citation (from within R, enter citation("SomaticSignatures")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("SomaticSignatures")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SomaticSignatures")

 

HTML R Script SomaticSignatures - HTML
PDF   Reference Manual
Text   NEWS

Details

biocViews Cancer, Clustering, GenomicVariation, HighThroughputSequencingData, PrinicpalComponent, Sequencing, Software, SomaticMutation, StatisticalMethod, Visualization
Version 1.0.1
In Bioconductor since BioC 2.14 (R-3.1)
License GPL-3
Depends R (>= 3.0.2)
Imports GenomeInfoDb, GenomicRanges, IRanges, VariantAnnotation, Biostrings, ggplot2, ggbio, stringr, reshape2, NMF, methods, pcaMethods, gtools
Suggests testthat, knitr, BiocStyle, parallel, BSgenome.Hsapiens.UCSC.hg19, SomaticCancerAlterations, h5vc, h5vcData, fastICA
System Requirements
URL http://bioconductor.org/packages/release/bioc/html/SomaticSignatures.html https://github.com/julian-gehring/SomaticSignatures
Depends On Me
Imports Me Rariant
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source SomaticSignatures_1.0.1.tar.gz
Windows Binary SomaticSignatures_1.0.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) SomaticSignatures_1.0.1.tgz
Mac OS X 10.9 (Mavericks) SomaticSignatures_1.0.1.tgz
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