These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
5. SylvX: a viewer for phylogenetic tree reconciliations. Chevenet F; Doyon JP; Scornavacca C; Jacox E; Jousselin E; Berry V Bioinformatics; 2016 Feb; 32(4):608-10. PubMed ID: 26515823 [TBL] [Abstract][Full Text] [Related]
6. GeneRax: A Tool for Species-Tree-Aware Maximum Likelihood-Based Gene Family Tree Inference under Gene Duplication, Transfer, and Loss. Morel B; Kozlov AM; Stamatakis A; Szöllősi GJ Mol Biol Evol; 2020 Sep; 37(9):2763-2774. PubMed ID: 32502238 [TBL] [Abstract][Full Text] [Related]
7. SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees. Liu K; Warnow TJ; Holder MT; Nelesen SM; Yu J; Stamatakis AP; Linder CR Syst Biol; 2012 Jan; 61(1):90-106. PubMed ID: 22139466 [TBL] [Abstract][Full Text] [Related]
8. SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Gouy M; Guindon S; Gascuel O Mol Biol Evol; 2010 Feb; 27(2):221-4. PubMed ID: 19854763 [TBL] [Abstract][Full Text] [Related]
9. On the quality of tree-based protein classification. Lazareva-Ulitsky B; Diemer K; Thomas PD Bioinformatics; 2005 May; 21(9):1876-90. PubMed ID: 15647305 [TBL] [Abstract][Full Text] [Related]
10. On the impact of uncertain gene tree rooting on duplication-transfer-loss reconciliation. Kundu S; Bansal MS BMC Bioinformatics; 2018 Aug; 19(Suppl 9):290. PubMed ID: 30367593 [TBL] [Abstract][Full Text] [Related]
12. SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Galtier N; Gouy M; Gautier C Comput Appl Biosci; 1996 Dec; 12(6):543-8. PubMed ID: 9021275 [TBL] [Abstract][Full Text] [Related]
13. DendroBLAST: approximate phylogenetic trees in the absence of multiple sequence alignments. Kelly S; Maini PK PLoS One; 2013; 8(3):e58537. PubMed ID: 23554899 [TBL] [Abstract][Full Text] [Related]
14. Exact Algorithms for Duplication-Transfer-Loss Reconciliation with Non-Binary Gene Trees. Kordi M; Bansal MS IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(4):1077-1090. PubMed ID: 28622673 [TBL] [Abstract][Full Text] [Related]
15. Structural properties of the reconciliation space and their applications in enumerating nearly-optimal reconciliations between a gene tree and a species tree. Wu T; Zhang L BMC Bioinformatics; 2011 Oct; 12 Suppl 9(Suppl 9):S7. PubMed ID: 22151151 [TBL] [Abstract][Full Text] [Related]
16. Capybara: equivalence ClAss enumeration of coPhylogenY event-BAsed ReconciliAtions. Wang Y; Mary A; Sagot MF; Sinaimeri B Bioinformatics; 2020 Aug; 36(14):4197-4199. PubMed ID: 32556075 [TBL] [Abstract][Full Text] [Related]
17. primetv: a viewer for reconciled trees. Sennblad B; Schreil E; Berglund Sonnhammer AC; Lagergren J; Arvestad L BMC Bioinformatics; 2007 May; 8():148. PubMed ID: 17484781 [TBL] [Abstract][Full Text] [Related]
18. Exploring and Visualizing Spaces of Tree Reconciliations. Huber KT; Moulton V; Sagot MF; Sinaimeri B Syst Biol; 2019 Jul; 68(4):607-618. PubMed ID: 30418649 [TBL] [Abstract][Full Text] [Related]
19. Reconciliation and local gene tree rearrangement can be of mutual profit. Nguyen TH; Ranwez V; Pointet S; Chifolleau AM; Doyon JP; Berry V Algorithms Mol Biol; 2013 Apr; 8(1):12. PubMed ID: 23566548 [TBL] [Abstract][Full Text] [Related]
20. DLRS: gene tree evolution in light of a species tree. Sjöstrand J; Sennblad B; Arvestad L; Lagergren J Bioinformatics; 2012 Nov; 28(22):2994-5. PubMed ID: 22982573 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]