TENET.AnnotationHub
This is the released version of TENET.AnnotationHub; for the devel version, see TENET.AnnotationHub.
Annotation data for the TENET package
Bioconductor version: Release (3.23)
AnnotationHub package containing datasets for use in the TENET package. Includes GenomicRanges objects representing putative enhancer, promoter, and open chromatin regions. All included datasets are aligned to the hg38 human genome.
Author: Rhie Lab at the University of Southern California [cre], Daniel Mullen [aut]
, Zexun Wu [aut]
, Ethan Nelson-Moore [aut]
, Suhn Rhie [aut]
Maintainer: Rhie Lab at the University of Southern California <rhielab at gmail.com>
citation("TENET.AnnotationHub")):
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("TENET.AnnotationHub")
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("TENET.AnnotationHub")| Using the TENET.AnnotationHub datasets | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, GenomicSequence, Homo_sapiens |
| Version | 1.1.0 |
| License | GPL-2 |
| Depends | R (>= 4.4) |
| Imports | AnnotationHub, GenomicRanges |
| System Requirements | |
| URL | https://github.com/rhielab/TENET.AnnotationHub |
| Bug Reports | https://github.com/rhielab/TENET.AnnotationHub/issues |
See More
| Suggests | TENET, AnnotationHubData, testthat (>= 3.0.0), BiocManager, knitr, rmarkdown, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | TENET |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | TENET.AnnotationHub_1.1.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Package Short Url | https://bioconductor.org/packages/TENET.AnnotationHub/ |
| Package Downloads Report | Download Stats |