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LSX: automated reduction of gene-specific lineage evolutionary rate heterogeneity for multi-gene phylogeny inference.
BMC Bioinformatics. 2019 Aug 13;20(1):420. doi: 10.1186/s12859-019-3020-1.
BMC Bioinformatics. 2019.
PMID: 31409290
Free PMC article.
LS³: A Method for Improving Phylogenomic Inferences When Evolutionary Rates Are Heterogeneous among Taxa.
Rivera-Rivera CJ, Montoya-Burgos JI.
Rivera-Rivera CJ, et al.
Mol Biol Evol. 2016 Jun;33(6):1625-34. doi: 10.1093/molbev/msw043. Epub 2016 Feb 23.
Mol Biol Evol. 2016.
PMID: 26912812
Free PMC article.
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Back to the roots: Reducing evolutionary rate heterogeneity among sequences gives support for the early morphological hypothesis of the root of Siluriformes (Teleostei: Ostariophysi).
Rivera-Rivera CJ, Montoya-Burgos JI.
Rivera-Rivera CJ, et al.
Mol Phylogenet Evol. 2018 Oct;127:272-279. doi: 10.1016/j.ympev.2018.06.004. Epub 2018 Jun 7.
Mol Phylogenet Evol. 2018.
PMID: 29885935
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Trunk dental tissue evolved independently from underlying dermal bony plates but is associated with surface bones in living odontode-bearing catfish.
Rivera-Rivera CJ, Montoya-Burgos JI.
Rivera-Rivera CJ, et al.
Proc Biol Sci. 2017 Oct 25;284(1865):20171831. doi: 10.1098/rspb.2017.1831.
Proc Biol Sci. 2017.
PMID: 29046381
Free PMC article.
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CastNet: a systems-level sequence evolution simulator.
Rivera-Rivera CJ, Grbic D.
Rivera-Rivera CJ, et al.
BMC Bioinformatics. 2023 Jun 12;24(1):247. doi: 10.1186/s12859-023-05366-1.
BMC Bioinformatics. 2023.
PMID: 37308829
Free PMC article.
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