AnnotationHubData
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see AnnotationHubData.
Transform public data resources into Bioconductor Data Structures
Bioconductor version: 3.8
These recipes convert a wide variety and a growing number of public bioinformatic data sets into easily-used standard Bioconductor data structures.
Author: Martin Morgan [ctb], Marc Carlson [ctb], Dan Tenenbaum [ctb], Sonali Arora [ctb], Paul Shannon [ctb], Lori Shepherd [ctb], Bioconductor Package Maintainer [cre]
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
citation("AnnotationHubData")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AnnotationHubData")
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("AnnotationHubData")| AnnotationHub: Creating An AnnotationHub Package | HTML | R Script |
| Introduction to AnnotationHubData | HTML | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, Software |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (8.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2.2), methods, utils, S4Vectors(>= 0.7.21), IRanges(>= 2.3.23), GenomicRanges, AnnotationHub(>= 2.9.14) |
| Imports | GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics, jsonlite, BiocManager, biocViews, AnnotationDbi, Biobase, Biostrings, DBI, GenomeInfoDb(>= 1.15.4), OrganismDbi, RSQLite, rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML, RCurl |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, knitr, BiocStyle, grasp2db, GenomeInfoDbData |
| Linking To | |
| Enhances | |
| Depends On Me | ExperimentHubData, ProteomicsAnnotationHubData |
| Imports Me | AHEnsDbs, EuPathDB |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AnnotationHubData_1.12.0.tar.gz |
| Windows Binary | AnnotationHubData_1.12.0.zip |
| Mac OS X 10.11 (El Capitan) | AnnotationHubData_1.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AnnotationHubData |
| Source Repository (Developer Access) | git clone [email protected]:packages/AnnotationHubData |
| Bioc Package Browser | https://code.bioconductor.org/browse/AnnotationHubData/ |
| Package Short Url | https://bioconductor.org/packages/AnnotationHubData/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.8 | Source Archive |