SomaticSignatures

Somatic Signatures

Bioconductor version: Development (3.0)

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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("SomaticSignatures")

Documentation

HTML R Script SomaticSignatures - HTML
PDF   Reference Manual
Text   NEWS

Details

biocViews Cancer, Clustering, GenomicVariation, HighThroughputSequencingData, PrinicpalComponent, Sequencing, Software, SomaticMutation, StatisticalMethod, Visualization
Version 1.1.0
In Bioconductor since BioC 2.14 (R-3.1)
License GPL-3
Depends R (>= 3.0.2)
Imports 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 Downloads

Package Source SomaticSignatures_1.1.0.tar.gz
Windows Binary SomaticSignatures_1.1.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) SomaticSignatures_1.1.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center