AnnotationHubData
Transform public data resources into Bioconductor Data Structures
Bioconductor version: Release (3.20)
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 "4.4") 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")| Introduction to AnnotationHubData | HTML |
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | DataImport, Software |
| Version | 1.36.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (9 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2.2), methods, utils, S4Vectors(>= 0.7.21), IRanges(>= 2.3.23), GenomicRanges, AnnotationHub(>= 2.15.15) |
| Imports | GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics, jsonlite, BiocManager, biocViews, BiocCheck, graph, AnnotationDbi, Biobase, Biostrings, DBI, GenomeInfoDb(>= 1.15.4), OrganismDbi, RSQLite, AnnotationForge, futile.logger (>= 1.3.0), XML, RCurl |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, knitr, BiocStyle, grasp2db, GenomeInfoDbData, rmarkdown, HubPub |
| Linking To | |
| Enhances | |
| Depends On Me | ExperimentHubData |
| Imports Me | AHMassBank, AHEnsDbs, EuPathDB |
| Suggests Me | HubPub, EPICv2manifest, GenomicState, TENET.AnnotationHub, homosapienDEE2CellScore, smokingMouse |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AnnotationHubData_1.36.0.tar.gz |
| Windows Binary (x86_64) | AnnotationHubData_1.36.0.zip |
| macOS Binary (x86_64) | AnnotationHubData_1.36.0.tgz |
| macOS Binary (arm64) | AnnotationHubData_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AnnotationHubData |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AnnotationHubData |
| Bioc Package Browser | https://code.bioconductor.org/browse/AnnotationHubData/ |
| Package Short Url | https://bioconductor.org/packages/AnnotationHubData/ |
| Package Downloads Report | Download Stats |