metaboliteIDmapping
This is the development version of metaboliteIDmapping; for the stable release version, see metaboliteIDmapping.
Mapping of Metabolite IDs from Different Sources
Bioconductor version: Development (3.24)
The package provides a comprehensive mapping table of nine different Metabolite ID formats and their common name. The data has been collected and merged from four publicly available source, including HMDB, Comptox Dashboard, ChEBI, and the graphite Bioconductor R package.
Author: Sebastian Canzler [aut, cre]
Maintainer: Sebastian Canzler <sebastian.canzler at ufz.de>
citation("metaboliteIDmapping")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
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("metaboliteIDmapping")
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("metaboliteIDmapping")| metaboliteIDmapping | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation |
| Version | 1.0.0 |
| License | GPL-3 |
| Depends | R (>= 4.0.0) |
| Imports | AnnotationHub |
| System Requirements | |
| URL | https://github.com/yigbt/metaboliteIDmapping |
See More
| Suggests | magrittr, graphite, dplyr, tidyr, tibble, rappdirs, XML, readxl, stringr, utils, knitr, sets, R.utils, readr, conflicted, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | multiGSEA |
| Suggests Me | PinPath |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | metaboliteIDmapping_1.0.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Package Short Url | https://bioconductor.org/packages/metaboliteIDmapping/ |
| Package Downloads Report | Download Stats |