Registration Open for Bioc2024 July 24-26


Core Utils for Mass Spectrometry Data

Bioconductor version: Release (3.19)

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, baseline estimation), quantitative aggregation functions (median polish, robust summarisation, ...), missing data imputation, data normalisation (quantiles, vsn, ...), 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] , Philippine Louail [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] , Mar Garcia-Aloy [ctb]

Maintainer: RforMassSpectrometry Package Maintainer <maintainer at>

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


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:

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


biocViews Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.16.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License Artistic-2.0
Depends R (>= 3.6.0)
Imports methods, S4Vectors, MASS, stats, clue
System Requirements
Bug Reports
See More
Suggests testthat, knitr, BiocStyle, rmarkdown, roxygen2, imputeLCMD, impute, norm, pcaMethods, vsn, Matrix, preprocessCore, missForest
Linking To Rcpp
Enhances HDF5Array
Depends On Me
Imports Me CompoundDb, hdxmsqc, 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 Build Report

Package Archives

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

Source Package MsCoreUtils_1.16.0.tar.gz
Windows Binary
macOS Binary (x86_64) MsCoreUtils_1.16.0.tgz
macOS Binary (arm64) MsCoreUtils_1.16.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats