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metabolomicsWorkbenchR

Metabolomics Workbench in R

Bioconductor version: Release (3.17)

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 bham.ac.uk>

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

Installation

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

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

BiocManager::install("metabolomicsWorkbenchR")

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("metabolomicsWorkbenchR")
Example using structToolbox HTML R Script
Introduction_to_metabolomicsWorkbenchR HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Metabolomics, Software
Version 1.10.0
In Bioconductor since BioC 3.12 (R-4.0) (3 years)
License GPL-3
Depends R (>= 4.0)
Imports data.table, httr, jsonlite, methods, MultiAssayExperiment, struct, SummarizedExperiment, utils
Linking To
Suggests BiocStyle, covr, knitr, HDF5Array, rmarkdown, structToolbox, testthat, pmp, grid, png
System Requirements
Enhances
URL
See More
Depends On Me
Imports Me
Suggests Me fobitools
Links To Me
Build Report  

Package Archives

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

Source Package metabolomicsWorkbenchR_1.10.0.tar.gz
Windows Binary metabolomicsWorkbenchR_1.10.0.zip
macOS Binary (x86_64) metabolomicsWorkbenchR_1.10.0.tgz
macOS Binary (arm64) metabolomicsWorkbenchR_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/metabolomicsWorkbenchR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/metabolomicsWorkbenchR
Bioc Package Browser https://code.bioconductor.org/browse/metabolomicsWorkbenchR/
Package Short Url https://bioconductor.org/packages/metabolomicsWorkbenchR/
Package Downloads Report Download Stats