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Bioconductor - branchpointer (development version)

branchpointer

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

Prediction of intronic splicing branchpoints

Bioconductor version: Development (3.22)

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 (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("branchpointer")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("branchpointer")
Using Branchpointer for annotation of intronic human splicing branchpoints PDF R Script Reference Manual PDF NEWS Text LICENSE Text Details biocViews GenomeAnnotation, GenomicVariation, MotifAnnotation, Software Version 1.35.0 In Bioconductor since BioC 3.5 (R-3.4) (8 years) 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 System Requirements URL See More Package Archives

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

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