AHEnsDbs
This is the development version of AHEnsDbs; for the stable release version, see AHEnsDbs.
EnsDbs for AnnotationHub
Bioconductor version: Development (3.24)
Supplies AnnotationHub with EnsDb Ensembl-based annotation databases for all species. EnsDb SQLite databases are generated separately from Ensembl MySQL databases using functions from the ensembldb package employing the Ensembl Perl API.
Author: Johannes Rainer
Maintainer: Johannes Rainer <johannes.rainer at eurac.edu>
citation("AHEnsDbs")):
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")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("AHEnsDbs")
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("AHEnsDbs")| Provide EnsDb databases for AnnotationHub | HTML | R Script |
| Reference Manual |
Details
| biocViews | AnnotationData, AnnotationHubSoftware, Coverage, DataImport, Sequencing |
| Version | 1.7.0 |
| License | Artistic-2.0 |
| Depends | R (>= 3.4), methods, ensembldb(>= 1.99.10) |
| Imports | AnnotationHubData(>= 1.5.24) |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, AnnotationHub(>= 2.7.13), rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AHEnsDbs_1.7.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Package Short Url | https://bioconductor.org/packages/AHEnsDbs/ |
| Package Downloads Report | Download Stats |