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This is the development version of MSPrep; for the stable release version, see MSPrep.

Package for Summarizing, Filtering, Imputing, and Normalizing Metabolomics Data

Bioconductor version: Development (3.20)

Package performs summarization of replicates, filtering by frequency, several different options for imputing missing data, and a variety of options for transforming, batch correcting, and normalizing data.

Author: Max McGrath [aut, cre], Matt Mulvahill [aut], Grant Hughes [aut], Sean Jacobson [aut], Harrison Pielke-lombardo [aut], Katerina Kechris [aut, cph, ths]

Maintainer: Max McGrath <max.mcgrath at>

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


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

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

# The following initializes usage of Bioc devel


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:

Using MSPrep HTML R Script
Reference Manual PDF


biocViews MassSpectrometry, Metabolomics, Preprocessing, Software
Version 1.15.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-3
Depends R (>= 4.1.0)
Imports SummarizedExperiment, S4Vectors, pcaMethods(>= 1.24.0), crmn, preprocessCore, dplyr (>= 0.7), tidyr, tibble (>= 1.2), magrittr, rlang, stats, stringr, methods, missForest, sva, VIM
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Suggests BiocStyle, knitr, rmarkdown, testthat (>= 1.0.2)
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Follow Installation instructions to use this package in your R session.

Source Package MSPrep_1.15.0.tar.gz
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macOS Binary (x86_64) MSPrep_1.15.0.tgz
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Source Repository git clone
Source Repository (Developer Access) git clone
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