raerdata
This is the released version of raerdata; for the devel version, see raerdata.
A collection of datasets for use with raer package
Bioconductor version: Release (3.23)
raerdata is an ExperimentHub package that provides a collection of files useful for demostrating functionality in the raer package. Datasets include 10x genomics scRNA-seq, bulk RNA-seq, and paired whole-genome and RNA-seq data. Additionally databases of human and mouse RNA editing sites are provided.
Author: Kent Riemondy [aut, cre]
Maintainer: Kent Riemondy <kent.riemondy at cuanschutz.edu>
citation("raerdata")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("raerdata")
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("raerdata")| raerdata | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | ExperimentData, ExperimentHub, ExpressionData, PackageTypeData, RNASeqData, SequencingData, SingleCellData |
| Version | 1.10.0 |
| License | MIT + file LICENSE |
| Depends | |
| Imports | ExperimentHub, Rsamtools, BiocGenerics, rtracklayer, SingleCellExperiment |
| System Requirements | |
| URL | https://github.com/rnabioco/raerdata |
| Bug Reports | https://github.com/rnabioco/raerdata/issues |
See More
| Suggests | rmarkdown, knitr, BiocStyle, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | raer |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | raerdata_1.10.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/raerdata |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/raerdata |
| Package Short Url | https://bioconductor.org/packages/raerdata/ |
| Package Downloads Report | Download Stats |