DOI: 10.18129/B9.bioc.MsCoreUtils  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see MsCoreUtils.

Core Utils for Mass Spectrometry Data

Bioconductor version: 3.17

MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning), quantitative aggregation functions (median polish, robust summarisation, ...), missing data imputation, data normalisation (quantiles, vsn, ...) as well as misc helper functions, that are used across high-level data structure within the R for Mass Spectrometry packages.

Author: RforMassSpectrometry Package Maintainer [cre], Laurent Gatto [aut] , Johannes Rainer [aut] , Sebastian Gibb [aut] , Adriaan Sticker [ctb], Sigurdur Smarason [ctb], Thomas Naake [ctb], Josep Maria Badia Aparicio [ctb] , Michael Witting [ctb] , Samuel Wieczorek [ctb], Roger Gine Bertomeu [ctb]

Maintainer: RforMassSpectrometry Package Maintainer <maintainer at>

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


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



HTML R Script Core Utils for Mass Spectrometry Data
PDF   Reference Manual
Text   NEWS


biocViews Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.12.0
In Bioconductor since BioC 3.11 (R-4.0) (3.5 years)
License Artistic-2.0
Depends R (>= 3.6.0)
Imports methods, S4Vectors, MASS, stats, clue
LinkingTo Rcpp
Suggests testthat, knitr, BiocStyle, rmarkdown, roxygen2, imputeLCMD, impute, norm, norm2, pcaMethods, vsn, Matrix, preprocessCore, missForest
Enhances HDF5Array
Depends On Me
Imports Me CompoundDb, MetaboAnnotation, MetaboCoreUtils, MetCirc, MsBackendMassbank, MsBackendMgf, MsBackendMsp, MsBackendRawFileReader, MsBackendSql, MsFeatures, MSnbase, PSMatch, QFeatures, qmtools, scp, Spectra, xcms
Suggests Me MetNet, msqrob2
Links To Me
Build Report  

Package Archives

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

Source Package MsCoreUtils_1.12.0.tar.gz
Windows Binary
macOS Binary (x86_64) MsCoreUtils_1.12.0.tgz
macOS Binary (arm64) MsCoreUtils_1.12.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: