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.