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Pynteny: synteny-aware hmm searches made easy

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 09 Sep 2023Publisher:Zenodo
Authors: Robaina Estévez, Semidán;
Code repository: https://github.com/Robaina/Pynteny/tree/v1.3.0

doi: 10.5281/zenodo.20762365 , 10.5281/zenodo.20761377 , 10.5281/zenodo.7048684 , 10.5281/zenodo.8330762

Pynteny: synteny-aware hmm searches made easy

Abstract

Pynteny 1.3.0 New --best_hmm_wins option for synteny search (pynteny search --best_hmm_wins, or best_hmm_wins=True via the Python API). When the same peptide is hit by more than one HMM (paralog cross-hits), only the highest-scoring HMM for that peptide is kept before matching the synteny structure. This fixes cases where paralog cross-hits caused genuine syntenic blocks to be dropped (#96, via #103). Opt-in and default off, so existing behaviour is unchanged. Full changelog: https://github.com/Robaina/Pynteny/compare/v1.2.0...v1.3.0

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