To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("signeR")

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

signeR

DOI: 10.18129/B9.bioc.signeR    

This is the development version of signeR; for the stable release version, see signeR.

Empirical Bayesian approach to mutational signature discovery

Bioconductor version: Development (3.7)

The signeR package provides an empirical Bayesian approach to mutational signature discovery. It is designed to analyze single nucleotide variaton (SNV) counts in cancer genomes, but can also be applied to other features as well. Functionalities to characterize signatures or genome samples according to exposure patterns are also provided.

Author: Rafael Rosales, Rodrigo Drummond, Renan Valieris, Israel Tojal da Silva

Maintainer: Renan Valieris <renan.valieris at cipe.accamargo.org.br>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("signeR")

Documentation

HTML R Script signeR
PDF   Reference Manual
Text   NEWS

Details

biocViews GenomicVariation, Software, SomaticMutation, StatisticalMethod, Visualization
Version 1.5.0
In Bioconductor since BioC 3.4 (R-3.3) (1 year)
License GPL-3
Depends NMF
Imports BiocGenerics, Biostrings, BSgenome(>= 1.36.3), class, graphics, grDevices, GenomicRanges, nloptr, methods, NMF, stats, utils, VariantAnnotation, PMCMR
LinkingTo Rcpp, RcppArmadillo (>= 0.7.100)
Suggests knitr, rtracklayer, BSgenome.Hsapiens.UCSC.hg19
SystemRequirements C++11
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package signeR_1.5.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) signeR_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/signeR
Package Short Url http://bioconductor.org/packages/signeR/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: