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Organism.dplyr

dplyr-based Access to Bioconductor Annotation Resources

Bioconductor version: Release (3.17)

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], Daniel van Twisk [ctb], Yubo Cheng [aut]

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

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

Installation

To install this package, start R (version "4.3") 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

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Organism.dplyr")
Organism.dplyr HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Annotation, GenomeAnnotation, Sequencing, Software
Version 1.28.0
In Bioconductor since BioC 3.5 (R-3.4) (6.5 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, rlang, methods, tools, utils, BiocFileCache, DBI, dbplyr, tibble
Linking To
Suggests org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, org.Mm.eg.db, TxDb.Mmusculus.UCSC.mm10.ensGene, testthat, knitr, rmarkdown, BiocStyle, ggplot2
System Requirements
Enhances
URL
See More
Depends On Me annotation
Imports Me Ularcirc
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package Organism.dplyr_1.28.0.tar.gz
Windows Binary Organism.dplyr_1.28.0.zip
macOS Binary (x86_64) Organism.dplyr_1.28.0.tgz
macOS Binary (arm64) Organism.dplyr_1.28.0.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
Bioc Package Browser https://code.bioconductor.org/browse/Organism.dplyr/
Package Short Url https://bioconductor.org/packages/Organism.dplyr/
Package Downloads Report Download Stats