Packages

Installation and use

Execute BiocManager::install("RforMassSpectrometry/RforMassSpectrometry") to install all the RforMassSpectrometry packages.

Load the core packages with library("RforMassSpectrometry").

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Packages

RforMassSpectrometry

RforMassSpectrometry is a meta-package that is used to manage the R for Mass Spectrometry suite and core package versions in a coherent way. Users will rely on this package to install and manage the other packages. Learn more ...

MsExperiment

The MsExperiment package provdes the infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry experiment. It relieves on the other RforMassSpectrometry core packages for the data crunching. Learn more ...

Spectra

The Spectra package provides base classes and processing methods for raw mass spectrometry data. It is designed with efficiency, both in terms of memory footprint and processing time in mind, and can manage data in different types of formats. Learn more ...

Features

The Features package offers the infrastrucutre to manage and process quantitative features for high-throughput mass spectrometry assays, including proteomics and metabolomics experiments. Learn more ...

MSnbase

The MSnbase package, developed and maintained since 2010 and available from Bioconductor provides infrastructure for manipulation, processing and visualisation of mass spectrometry and proteomics data, ranging from raw to quantitative and annotated data. Learn more ...

Chromatograms

The Chromatograms package provides base classes and processing methods for chromatographics data. It is designed with efficiency, both in terms of memory footprint and processing time in mind, and can manage data in different types of formats. Learn more ...

MsCoreUtils

The MsCoreUtils package defines low-level functions for mass spectrometry data processing and is independent of any high-level data structures. Learn more ...

unimod

The unimod package provides an interface to the community supported database for amino acide/protein modifications using mass spectrometry. Learn more ...

Get help

For questions about specific software or their usage, please refer to the software’s github issue page, or use the Bioconductor support site.