Organism.dplyr

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see Organism.dplyr.

dplyr-based Access to Bioconductor Annotation Resources


Bioconductor version: 3.6

This package provides an alternative interface to Bioconductor 'annotation' resources, in particular the gene identifier mapping functionality of the 'org' packages (e.g., org.Hs.eg.db) and the genome coordinate functionality of the 'TxDb' packages (e.g., TxDb.Hsapiens.UCSC.hg38.knownGene).

Author: Martin Morgan [aut, cre], Yubo Cheng [ctb]

Maintainer: Martin Morgan <martin.morgan at roswellpark.org>

Citation (from within R, enter citation("Organism.dplyr")):

Installation

To install this package, start R (version "3.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("Organism.dplyr")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF
NEWS Text

Details

biocViews Annotation, GenomeAnnotation, Sequencing, Software
Version 1.6.2
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License Artistic-2.0
Depends R (>= 3.4), dplyr (>= 0.7.0), AnnotationFilter(>= 1.1.3)
Imports RSQLite, S4Vectors, GenomeInfoDb, IRanges, GenomicRanges, GenomicFeatures, AnnotationDbi, methods, tools, utils, BiocFileCache, DBI, dbplyr
System Requirements
URL
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Suggests org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, org.Mm.eg.db, TxDb.Mmusculus.UCSC.mm10.ensGene, testthat, knitr, rmarkdown, BiocStyle, ggplot2
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Organism.dplyr_1.6.2.tar.gz
Windows Binary Organism.dplyr_1.6.2.zip
Mac OS X 10.11 (El Capitan) Organism.dplyr_1.6.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/Organism.dplyr
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Organism.dplyr
Package Short Url https://bioconductor.org/packages/Organism.dplyr/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive