An Open Infrastructure for Mass Spectrometry Data in R.

We present the Spectra software, an R/Bioconductor package, defining an efficient infrastructure for storing, handling, and visualizing mass spectrometry data. We describe how Spectra adapts to different data types, sizes, and use cases, addressing scalability while keeping a consistent user interface. We also demonstrate how it can integrate with third-party Python tools and follow modern tidyomics principles, seamlessly integrating with more general tidy data science tools.