Managing mass spectrometry experiments

The MsExperiment package provides the MsExperiment class that can be used to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry experiment. This includes

• experimental design
• data files
• raw data: spectra and chromatograms
• proteomics identification results and protein database
• quantitative features

The respective data handling functionality is handled by dedicated packages such as Spectra for spectra data, QFeatures for quantitative features, Biostrings for fasta files, …

See the package homepage for more information.

This package is part of the RforMassSpectrometry initiative: https://www.rformassspectrometry.org/

Installation

The package can be installed with

install.packages("BiocManager")
BiocManager::install("MsExperiment")

Contributions

Contributions are highly welcome and should follow the contribution guidelines. Also, please check the coding style guidelines in the RforMassSpectrometry vignette.