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MWASTools: an integrated pipeline to perform metabolome-wide association studies

Bioconductor version: Release (3.19)

MWASTools provides a complete pipeline to perform metabolome-wide association studies. Key functionalities of the package include: quality control analysis of metabonomic data; MWAS using different association models (partial correlations; generalized linear models); model validation using non-parametric bootstrapping; visualization of MWAS results; NMR metabolite identification using STOCSY; and biological interpretation of MWAS results.

Author: Andrea Rodriguez-Martinez, Joram M. Posma, Rafael Ayala, Ana L. Neves, Maryam Anwar, Jeremy K. Nicholson, Marc-Emmanuel Dumas

Maintainer: Andrea Rodriguez-Martinez <andrea.rodriguez-martinez13 at>, Rafael Ayala <rafael.ayala at>

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


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:

MWASTools HTML R Script
Reference Manual PDF


biocViews Cheminformatics, Lipidomics, Metabolomics, QualityControl, Software, SystemsBiology
Version 1.28.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License CC BY-NC-ND 4.0
Depends R (>= 3.5.0)
Imports glm2, ppcor, qvalue, car, boot, grid, ggplot2, gridExtra, igraph, SummarizedExperiment, KEGGgraph, RCurl, KEGGREST, ComplexHeatmap, stats, utils
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Suggests RUnit, BiocGenerics, knitr, BiocStyle, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package MWASTools_1.28.0.tar.gz
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macOS Binary (x86_64) MWASTools_1.28.0.tgz
macOS Binary (arm64) MWASTools_1.28.0.tgz
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