To install this package, start R and enter:
## try http if https is not available
source("https://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: 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:
## try http if https is not available
source("https://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")
| R Script | CalculatingrfPredscoreswithpackagerfPred | |
| 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 |
Documentation »
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