We present version 2 of the MSnbase R/Bioconductor package. MSnbase provides infrastructure for the manipulation, processing and visualisation of mass spectrometry data. We focus on the new on-disk infrastructure, that allows the handling of large raw mass spectrometry experiments on commodity hardware and illustrate how the package is used for elegant data processing, method development and visualisation.
- The manuscript.
- Supplementary material presenting a large scale analysis with the on-disk backend.
- Presentation of the software at ISMB 2020: https://youtu.be/lSiVZnrV5Bc.
The code to reproduce the analyses and figures:
More information:
- The MSnbase website
- MSnbase's Bioconductor landing page
Citation:
MSnbase, efficient and elegant R-based processing and visualisation of raw mass spectrometry data. Laurent Gatto, Sebastian Gibb, Johannes Rainer. bioRxiv 2020.04.29.067868; doi: https://doi.org/10.1101/2020.04.29.067868
Now published in Journal of Proteome Research doi: 10.1021/acs.jproteome.0c00313