Organism.dplyr
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Organism.dplyr.
dplyr-based Access to Bioconductor Annotation Resources
Bioconductor version: 3.9
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("Organism.dplyr")):
Installation
To install this package, start R (version "3.6") 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 | ||
| NEWS | Text |
Details
| biocViews | Annotation, GenomeAnnotation, Sequencing, Software |
| Version | 1.12.1 |
| 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 |
See More
| Suggests | org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, org.Mm.eg.db, TxDb.Mmusculus.UCSC.mm10.ensGene, testthat, knitr, rmarkdown, BiocStyle, ggplot2 |
| Linking To | |
| Enhances | |
| Depends On Me | annotation |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Organism.dplyr_1.12.1.tar.gz |
| Windows Binary | Organism.dplyr_1.12.1.zip |
| Mac OS X 10.11 (El Capitan) | Organism.dplyr_1.12.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Organism.dplyr |
| Source Repository (Developer Access) | git clone [email protected]: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 |
| Old Source Packages for BioC 3.9 | Source Archive |