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Matchms is a specialized Claude Code skill designed for researchers and bioinformaticians working with mass spectrometry data in metabolomics and proteomics. It provides a comprehensive toolkit for importing various spectral formats like mzML and MGF, standardizing metadata, and applying advanced peak filters. The skill excels at calculating spectral similarities using metrics such as CosineGreedy and ModifiedCosine, enabling users to match unknown queries against reference libraries. By facilitating the creation of reproducible processing pipelines and chemical annotations, Matchms streamlines the transition from raw spectral data to biological insight.
