NxtIRFdata

DOI: 10.18129/B9.bioc.NxtIRFdata    

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

Data for NxtIRF

Bioconductor version: Development (3.17)

NxtIRFdata is a companion package for SpliceWiz, an interactive analysis and visualization tool for alternative splicing quantitation (including intron retention) for RNA-seq BAM files. NxtIRFdata contains Mappability files required for the generation of human and mouse references. NxtIRFdata also contains a synthetic genome reference and example BAM files used to demonstrate SpliceWiz's functionality. BAM files are based on 6 samples from the Leucegene dataset provided by NCBI Gene Expression Omnibus under accession number GSE67039.

Author: Alex Chit Hei Wong [aut, cre, cph], Ulf Schmitz [ctb]

Maintainer: Alex Chit Hei Wong <a.wong at centenary.org.au>

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

Installation

To install this package, start R (version "4.3") and enter:

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

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

BiocManager::install("NxtIRFdata")

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("NxtIRFdata")

 

HTML R Script NxtIRFdata: a data package for NxtIRF
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews ExperimentData, ExperimentHub, ExpressionData, Genome, PackageTypeData, RNASeqData
Version 1.5.0
License MIT + file LICENSE
Depends
Imports ExperimentHub, BiocFileCache, rtracklayer, R.utils
LinkingTo
Suggests testthat (>= 3.0.0), knitr, rmarkdown
SystemRequirements
Enhances
URL https://github.com/alexchwong/NxtIRFdata
BugReports https://support.bioconductor.org/
Depends On Me NxtIRFcore, SpliceWiz
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package NxtIRFdata_1.5.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/NxtIRFdata
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/NxtIRFdata
Package Short Url https://bioconductor.org/packages/NxtIRFdata/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: