Registration Open for Bioc2024 July 24-26


Infrastructure for Mass Spectrometry Experiments

Bioconductor version: Release (3.19)

Infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry (MS) experiment. The MsExperiment package provides light-weight and flexible containers for MS experiments building on the new MS infrastructure provided by the Spectra, QFeatures and related packages. Along with raw data representations, links to original data files and sample annotations, additional metadata or annotations can also be stored within the MsExperiment container. To guarantee maximum flexibility only minimal constraints are put on the type and content of the data within the containers.

Author: Laurent Gatto [aut, cre] , Johannes Rainer [aut] , Sebastian Gibb [aut]

Maintainer: Laurent Gatto <laurent.gatto at>

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


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:

Managing Mass Spectrometry Experiments HTML R Script
Reference Manual PDF


biocViews DataImport, ExperimentalDesign, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.6.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License Artistic-2.0
Depends R (>= 4.2), ProtGenerics(>= 1.35.2)
Imports methods, S4Vectors, IRanges, Spectra, SummarizedExperiment, QFeatures, DBI, BiocGenerics
System Requirements
Bug Reports
See More
Suggests testthat, knitr (>= 1.1.0), roxygen2, BiocStyle(>= 2.5.19), rmarkdown, rpx, mzR, msdata, MsBackendSql(>= 1.3.2), RSQLite
Linking To
Depends On Me
Imports Me MsQuality, xcms
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package MsExperiment_1.6.0.tar.gz
Windows Binary
macOS Binary (x86_64) MsExperiment_1.6.0.tgz
macOS Binary (arm64) MsExperiment_1.6.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats