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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("branchpointer")
In most cases, you don't need to download the package archive at all.
branchpointer
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Prediction of intronic splicing branchpoints
Bioconductor version: Release (3.5)
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("https://bioconductor.org/biocLite.R")
biocLite("branchpointer")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("branchpointer")
| R Script | Using Branchpointer for annotation of intronic human splicing branchpoints | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | GenomeAnnotation, GenomicVariation, MotifAnnotation, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (0.5 years) |
| License | BSD_3_clause + file LICENSE |
| Depends | caret, R (>= 3.4) |
| Imports | plyr, kernlab, gbm, stringr, cowplot, ggplot2, biomaRt, Biostrings, parallel, utils, BSgenome.Hsapiens.UCSC.hg38, rtracklayer, GenomicRanges, 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_1.0.0.tar.gz |
| Windows Binary | branchpointer_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | branchpointer_1.0.0.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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