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bioRxiv · 10.1101/2024.11.15.623814

Orthrus: an AI-powered, cloud-ready, and open-source hybrid approach for metaproteomics

Chiang, Y.·Collins, M. J.
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Abstract

While metaproteomics provides invaluable insight into microbial communities and functions, significant bioinformatics challenges persist due to data complexity and the limitations of database searching. We introduce Orthrus, a hybrid approach combining transformer-based de novo sequencing (Casanovo) and database searching with rescoring (Sage+Mokapot). Benchmarking against PEAKS(R)11, MaxQuant, and MetaNovo, Orthrus demonstrates high peptide outputs, taxonomic diversity, and proteome coverage. Orthrus is Python-based and accessible to all via Google Colaboratory.

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Chiang, Y., Collins, M. J.. 2024-11-15. Orthrus: an AI-powered, cloud-ready, and open-source hybrid approach for metaproteomics. https://doi.org/10.1101/2024.11.15.623814

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