AHWikipathwaysDbs
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see AHWikipathwaysDbs.
Metabolites linked to WikiPathways pathways (for AnnotationHub)
Bioconductor version: 3.13
The package provides a comprehensive mapping table of metabolites linked to Wikipathways pathways. The tables include HMDB, KEGG, ChEBI, Drugbank, PubChem compound, ChemSpider, KNApSAcK, and Wikidata IDs plus CAS and InChIKey. The tables are provided for each of the 25 species ("Anopheles gambiae", "Arabidopsis thaliana", "Bacillus subtilis", "Bos taurus", "Caenorhabditis elegans", "Canis familiaris", "Danio rerio", "Drosophila melanogaster", "Equus caballus", "Escherichia coli", "Gallus gallus", "Gibberella zeae", "Homo sapiens", "Hordeum vulgare", "Mus musculus", "Mycobacterium tuberculosis", "Oryza sativa", "Pan troglodytes", "Plasmodium falciparum", "Populus trichocarpa", "Rattus norvegicus", "Saccharomyces cerevisiae", "Solanum lycopersicum", "Sus scrofa", "Zea mays"). These table information can be used for Metabolite Set Enrichment Analysis.
Author: Kozo Nishida [aut, cre] 
Maintainer: Kozo Nishida <kozo.nishida at gmail.com>
citation("AHWikipathwaysDbs")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AHWikipathwaysDbs")
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("AHWikipathwaysDbs")| Provide WikipathwaysDb databases for AnnotationHub | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation |
| Version | 0.99.4 |
| License | Artistic-2.0 |
| Depends | R (>= 4.1.0) |
| Imports | AnnotationHub(>= 2.23.0) |
| System Requirements | |
| URL | https://github.com/kozo2/AHWikipathwaysDbs |
See More
| Suggests | BiocStyle, magrittr, dplyr, tibble, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AHWikipathwaysDbs_0.99.4.tar.gz |
| Windows Binary | |
| macOS 10.13 (High Sierra) | |
| Package Short Url | https://bioconductor.org/packages/AHWikipathwaysDbs/ |
| Package Downloads Report | Download Stats |