The Spectra software integrates mass spectrometry data in R, improving scalability and user experience while suggesting compatibility with Python tools.
We present the Spectra software, an R/Bioconductor package defining an efficient infrastructure for storing, handling and visualising 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 follows modern tidyomics principles,seamlessly integrating with more general tidy data science tools.
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Rainer et al. (2025) studied this question.
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