MacSyFinder v2: Improved modelling and search engine to identify molecular systems in genomes

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Néron, Bertrand | Denise, Rémi | Coluzzi, Charles | Touchon, Marie | Rocha, Eduardo P.C. | Abby, Sophie

Edité par CCSD ; Peer Community In -

International audience. MacSyFinder is a program to model and detect macromolecular systems, genetic pathways… in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, they are encoded in compact loci (conserved genetic architecture).The user models these systems with MacSyFinder to reflect these conserved features, and to allow their efficient detection.Criteria for systems detection include component content (quorum), and genomic co-localization. Each component corresponds to a hidden Markov model (HMM) protein profile to perform sequence similarity searches with the program Hmmer.

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