AHPathbankDbs
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see AHPathbankDbs.
Metabolites and proteins linked to PathBank pathways (for AnnotationHub)
Bioconductor version: 3.16
The package provides a comprehensive mapping table of metabolites and proteins linked to PathBank pathways. The tables include HMDB, KEGG, ChEBI, CAS, Drugbank, Uniprot IDs. The tables are provided for each of the 10 species ("Homo sapiens", "Escherichia coli", "Mus musculus", "Arabidopsis thaliana", "Saccharomyces cerevisiae", "Bos taurus", "Caenorhabditis elegans", "Rattus norvegicus", "Drosophila melanogaster", and "Pseudomonas aeruginosa"). These table information can be used for Metabolite Set (and other) Enrichment Analysis.
Author: Kozo Nishida [aut, cre] 
Maintainer: Kozo Nishida <kozo.nishida at gmail.com>
citation("AHPathbankDbs")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AHPathbankDbs")
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("AHPathbankDbs")| Provide PathbankDb databases for AnnotationHub | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation |
| Version | 0.99.5 |
| License | Artistic-2.0 |
| Depends | R (>= 4.1.0) |
| Imports | AnnotationHub(>= 2.23.0) |
| System Requirements | |
| URL | https://github.com/kozo2/AHPathbankDbs |
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 | AHPathbankDbs_0.99.5.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Package Short Url | https://bioconductor.org/packages/AHPathbankDbs/ |
| Package Downloads Report | Download Stats |