NxtIRFdata
This is the development version of NxtIRFdata; for the stable release version, see NxtIRFdata.
Data for NxtIRF
Bioconductor version: Development (3.22)
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 <alexchwong.github at gmail.com>
citation("NxtIRFdata")):
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("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")| NxtIRFdata: a data package for NxtIRF | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | ExperimentData, ExperimentHub, ExpressionData, Genome, PackageTypeData, RNASeqData |
| Version | 1.15.0 |
| License | MIT + file LICENSE |
| Depends | |
| Imports | ExperimentHub, BiocFileCache, rtracklayer, R.utils |
| System Requirements | |
| URL | https://github.com/alexchwong/NxtIRFdata |
| Bug Reports | https://support.bioconductor.org/ |
See More
| Suggests | testthat (>= 3.0.0), knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | SpliceWiz |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | NxtIRFdata_1.15.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |