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Rust-Bio
This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
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Sage is a proteomics search engine - it transforms raw mass spectra into peptide identifications via efficient database searching. It's (to my knowledge) currently the fastest proteomics search engine (5x to 1000x faster than proprietary competitors), and designed to be "cloud-native" (can read/write compressed data from bulk object storage). Where commercial software from Thermo Scientific (the instrument manufacturer) might take > 24 hours to run a search on 200 GB of mass spectra, Sage can complete the same search in < 15 minutes - and identify substantially more peptides.
e.g. Rust-Bio
Is this a posting list? There is a lot of bioinformatics in this post, but if I squint, some of the problems do look like general information retrieval problems. Even the discussion of ordering the arrays by mass sounds like search relevance scores and makes me wonder if it makes sense to try to get something off the shelf like meillisearch/milli or tantavy to support this use case.
Is this a posting list? There is a lot of bioinformatics in this post, but if I squint, some of the problems do look like general information retrieval problems. Even the discussion of ordering the arrays by mass sounds like search relevance scores and makes me wonder if it makes sense to try to get something off the shelf like meillisearch/milli or tantavy to support this use case.