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
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see signeR.
Empirical Bayesian approach to mutational signature discovery
Bioconductor version: 3.4
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 |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | GenomicVariation, Software, SomaticMutation, StatisticalMethod, Visualization |
| Version | 1.0.1 |
| In Bioconductor since | BioC 3.4 (R-3.3) (0.5 years) |
| License | GPL-3 |
| Depends | |
| Imports | BiocGenerics, Biostrings, BSgenome(>= 1.36.3), class, graphics, grDevices, GenomicRanges, nloptr, methods, NMF, stats, utils, VariantAnnotation, PMCMR |
| LinkingTo | Rcpp, RcppArmadillo |
| 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.
| Package Source | signeR_1.0.1.tar.gz |
| Windows Binary | signeR_1.0.1.zip (32- & 64-bit) |
| Mac OS X 10.9 (Mavericks) | signeR_1.0.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/signeR/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/signeR/ |
| Package Downloads Report | Download Stats |
Documentation »
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