geneslator

This is the development version of geneslator; to use it, please install the devel version of Bioconductor.

Geneslator, a tool for accurate gene name conversion

Bioconductor version: Development (3.24)

Geneslator is a comprehensive R package that performs gene identifier conversion and ortholog mapping. The tool integrates multiple cross-organism databases (NCBI, Ensembl, UniProt, GO, KEGG, Reactome, Wikipathways) and organism-specific resources within a single, coherent framework. Geneslator supports many organisms, including human, mouse, rat, yeast, worm, fly, zebrafish and arabidopsis.

Author: Giovanni Micale [aut, cre] ORCID: 0000-0002-4953-026X , Giulia Cavallaro [aut] ORCID: 0009-0000-1212-8368 , Grete Francesca Privitera [aut] ORCID: 0000-0003-1807-4780 , Alfredo Pulvirenti [aut] ORCID: 0000-0002-9764-0295 , Stefano Forte [aut] ORCID: 0000-0001-5746-7451 , Salvatore Alaimo [aut] ORCID: 0000-0003-4825-7617

Maintainer: Giovanni Micale <giovanni.micale at unict.it>

Citation (from within R, enter citation("geneslator")):

Giovanni Micale, Giulia Cavallaro, Grete Francesca Privitera, Alfredo Pulvirenti, Stefano Forte, Salvatore Alaimo. geneslator: Geneslator, a tool for accurate gene name conversion. doi:10.18129/B9.bioc.geneslator, R package version 0.99.15, https://bioconductor.org/packages/geneslator.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("geneslator")

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("geneslator")

Geneslator R package for gene annotation	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AnnotationData, Arabidopsis_thaliana, Caenorhabditis_elegans, Danio_rerio, Drosophila_melanogaster, Homo_sapiens, Mus_musculus, OrgDb, Organism, OrganismDb, PackageType, Rattus_norvegicus, Saccharomyces_cerevisiae, zebrafish
Version	0.99.15
In Bioconductor since	BioC 3.24 (R-4.6)
License	Artistic-2.0
Depends	R (>= 4.6.0)
Imports	AnnotationDbi, methods, IRanges, utils, jsonlite, DBI, curl, zen4R, BiocFileCache, KEGGREST
System Requirements
URL	https://github.com/knowmics-lab/geneslator
Bug Reports	https://github.com/knowmics-lab/geneslator/issues

Suggests	testthat, knitr, rmarkdown, BiocStyle
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Package Archives

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

Source Package	geneslator_0.99.15.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Package Short Url	https://bioconductor.org/packages/geneslator/
Package Downloads Report	Download Stats