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Metabolomics Workbench in R

Bioconductor version: Release (3.19)

This package provides functions for interfacing with the Metabolomics Workbench RESTful API. Study, compound, protein and gene information can be searched for using the API. Methods to obtain study data in common Bioconductor formats such as SummarizedExperiment and MultiAssayExperiment are also included.

Author: Gavin Rhys Lloyd [aut, cre], Ralf Johannes Maria Weber [aut]

Maintainer: Gavin Rhys Lloyd <g.r.lloyd at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Example using structToolbox HTML R Script
Introduction_to_metabolomicsWorkbenchR HTML R Script
Reference Manual PDF


biocViews Metabolomics, Software
Version 1.14.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-3
Depends R (>= 4.0)
Imports data.table, httr, jsonlite, methods, MultiAssayExperiment, struct, SummarizedExperiment, utils
System Requirements
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Suggests BiocStyle, covr, knitr, HDF5Array, httptest, rmarkdown, structToolbox, testthat, pmp, grid, png
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Package Archives

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

Source Package metabolomicsWorkbenchR_1.14.0.tar.gz
Windows Binary
macOS Binary (x86_64) metabolomicsWorkbenchR_1.14.0.tgz
macOS Binary (arm64) metabolomicsWorkbenchR_1.14.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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