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biodbHmdb

biodbHmdb, a library for connecting to the HMDB Database


Bioconductor version: Release (3.18)

The biodbHmdb library is an extension of the biodb framework package that provides access to the HMDB Metabolites database. It allows to download the whole HMDB Metabolites database locally, access entries and search for entries by name or description. A future version of this package will also include a search by mass and mass spectra annotation.

Author: Pierrick Roger [aut, cre]

Maintainer: Pierrick Roger <pierrick.roger at cea.fr>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("biodbHmdb")

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("biodbHmdb")
Introduction to the biodbHmdb package. HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DataImport, Infrastructure, Software
Version 1.8.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License AGPL-3
Depends R (>= 4.1)
Imports R6, biodb(>= 1.3.2), Rcpp, zip
System Requirements
URL https://github.com/pkrog/biodbHmdb
Bug Reports https://github.com/pkrog/biodbHmdb/issues
See More
Suggests BiocStyle, roxygen2, devtools, testthat (>= 2.0.0), knitr, rmarkdown, covr, lgr
Linking To Rcpp, testthat
Enhances
Depends On Me
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 biodbHmdb_1.8.0.tar.gz
Windows Binary biodbHmdb_1.8.0.zip
macOS Binary (x86_64) biodbHmdb_1.8.0.tgz
macOS Binary (arm64) biodbHmdb_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/biodbHmdb
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/biodbHmdb
Bioc Package Browser https://code.bioconductor.org/browse/biodbHmdb/
Package Short Url https://bioconductor.org/packages/biodbHmdb/
Package Downloads Report Download Stats