To install this package, start R and enter:

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

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

rfPred

 

Assign rfPred functional prediction scores to a missense variants list

Bioconductor version: Release (3.1)

Based on external numerous data files where rfPred scores are pre-calculated on all genomic positions of the human exome, the package gives rfPred scores to missense variants identified by the chromosome, the position (hg19 version), the referent and alternative nucleotids and the uniprot identifier of the protein. Note that for using the package, the user has to be connected on the Internet or to download the TabixFile and index (approximately 3.3 Go).

Author: Fabienne Jabot-Hanin, Hugo Varet and Jean-Philippe Jais

Maintainer: Hugo Varet <varethugo at gmail.com>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("rfPred")

 

PDF R Script CalculatingrfPredscoreswithpackagerfPred
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, Classification, Software
Version 1.6.0
In Bioconductor since BioC 2.13 (R-3.0) (2 years)
License GPL (>=2 )
Depends Rsamtools, GenomicRanges, IRanges, data.table, methods, parallel
Imports
LinkingTo
Suggests BiocStyle
SystemRequirements
Enhances
URL http://www.sbim.fr/rfPred
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source rfPred_1.6.0.tar.gz
Windows Binary rfPred_1.6.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) rfPred_1.6.0.tgz
Mac OS X 10.9 (Mavericks) rfPred_1.6.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/rfPred/tree/release-3.1
Package Short Url http://bioconductor.org/packages/rfPred/
Package Downloads Report Download Stats

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