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COSS: A fast and user-friendly tool for spectral library searching

By Genet Abay Shiferaw, Elien Vandermarliere, Niels Hulstaert, Ralf Gabriels, Lennart Martens, Pieter-Jan Volders

Posted 17 May 2019
bioRxiv DOI: 10.1101/640458 (published DOI: 10.1021/acs.jproteome.9b00743)

Spectral similarity searching to identify peptide-derived MS/MS spectra is a promising technique, and different spectrum similarity search tools have therefore been developed. Each of these tools, however, comes with some limitations, mainly due to low processing speed and issues with handling large databases. Furthermore, the number of spectral data formats supported is typically limited, which also creates a threshold to adoption. We have therefore developed COSS (CompOmics Spectral Searching), a new and user-friendly spectral library search tool supporting two scoring functions. COSS also includes decoy spectra generation for result validation. We have benchmarked COSS on three different spectral libraries and compared the results with established spectral search and sequence database search tool. Our comparison showed that COSS more reliably identifies spectra and is faster than other spectral library searching tools. COSS binaries and source code can be freely downloaded from <https://github.com/compomics/COSS>.

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