To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("branchpointer")

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

branchpointer

DOI: 10.18129/B9.bioc.branchpointer    

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

Prediction of intronic splicing branchpoints

Bioconductor version: Development (3.6)

Predicts branchpoint probability for sites in intronic branchpoint windows. Queries can be supplied as intronic regions; or to evaluate the effects of mutations, SNPs.

Author: Beth Signal

Maintainer: Beth Signal <b.signal at garvan.org.au>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("branchpointer")

Documentation

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

browseVignettes("branchpointer")

 

PDF R Script Using Branchpointer for annotation of intronic human splicing branchpoints
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews GenomeAnnotation, GenomicVariation, MotifAnnotation, Software
Version 1.3.1
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
License BSD_3_clause + file LICENSE
Depends caret, R (>= 3.4)
Imports plyr, kernlab, gbm, stringr, cowplot, ggplot2, biomaRt, Biostrings, parallel, utils, stats, BSgenome.Hsapiens.UCSC.hg38, rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, S4Vectors, data.table
LinkingTo
Suggests knitr, BiocStyle
SystemRequirements
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 branchpointer_1.3.1.tar.gz
Windows Binary branchpointer_1.3.1.zip
Mac OS X 10.11 (El Capitan) branchpointer_1.3.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/branchpointer
Package Short Url http://bioconductor.org/packages/branchpointer/
Package Downloads Report Download Stats

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