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REvolutionH-tl: Reconstruction of Evolutionary Histories tool
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Number of Authors: 82024 (English)In: Comparative Genomics: Proceedings / [ed] Celine Scornavacca, Maribel Hernández-Rosales, Springer Nature, 2024, p. 89-109Conference paper, Published paper (Refereed)
Abstract [en]

Orthology detection from sequence similarity remains a difficult and computationally expensive problem for gene families with large numbers of gene duplications and losses. REvolutionH-tl implements a new graph-based approach to identify orthogroups, orthology, and paralogy relationships first, and it uses this information in a second step to infer event-labeled gene trees and their reconciliation with an inferred species tree. It avoids using gene trees and species trees upon input and settles for a maximal subtree reconciliation in cases where noise or horizontal gene transfer precludes a global reconciliation. The accuracy of the tool is comparable to competing tools at substantially reduced computational cost. 

Place, publisher, year, edition, pages
Springer Nature, 2024. p. 89-109
Series
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), ISSN 0302-9743, E-ISSN 1611-3349 ; 14616 LNBI
Keywords [en]
best matches, evolutionary scenarios, orthology
National Category
Bioinformatics (Computational Biology)
Identifiers
URN: urn:nbn:se:su:diva-236130DOI: 10.1007/978-3-031-58072-7_5Scopus ID: 2-s2.0-85192245669ISBN: 978-3-031-58071-0 (print)OAI: oai:DiVA.org:su-236130DiVA, id: diva2:1917314
Conference
21st International Conference, RECOMB-CG 2024, Boston, MA, USA, April 27–28, 2024
Available from: 2024-12-02 Created: 2024-12-02 Last updated: 2024-12-02Bibliographically approved

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Hellmuth, Marc

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