Selected article for: "maximum likelihood and Time reversible model"
Author: Wassenaar, Trudy M.; Jun, Se-Ran; Robeson, Michael; Ussery, David W.
Title: Comparative genomics of hepatitis A virus, hepatitis C virus, and hepatitis E virus provides insights into the evolutionary history of Hepatovirus species
  • Document date: 2019_11_19
    • ID: 3hayxyuk_16
    Snippet: The genomes were aligned by MAFFT (Yamada, Tomii, & Katoh, 2016) , and FastTree was used to build phylogenetic maximum-likelihood (ML) trees (Price, Dehal, & Arkin, 2009 ). This infers approximately maximum-likelihood phylogenetic trees and is much faster than other algorithms; we used the generalized time-reversible (GTR) model of nucleotide evolution and the Shimodaira-Hasegawa test for statistical confidence of internal nodes. Information on g.....
    Document: The genomes were aligned by MAFFT (Yamada, Tomii, & Katoh, 2016) , and FastTree was used to build phylogenetic maximum-likelihood (ML) trees (Price, Dehal, & Arkin, 2009 ). This infers approximately maximum-likelihood phylogenetic trees and is much faster than other algorithms; we used the generalized time-reversible (GTR) model of nucleotide evolution and the Shimodaira-Hasegawa test for statistical confidence of internal nodes. Information on genotypes and subtypes that were included in GenBank annotations was used to map these on the trees. For visual representation, the HCV and HEV trees are shown after collapsing branches at 90% identity.

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