Selected article for: "likelihood model and maximum likelihood model"
Author: Chang, Chia Lin; Semyonov, Jenia; Cheng, Po Jen; Huang, Shang Yu; Park, Jae Il; Tsai, Huai-Jen; Lin, Cheng-Yung; Grützner, Frank; Soong, Yung Kuei; Cai, James J.; Hsu, Sheau Yu Teddy
Title: Widespread Divergence of the CEACAM/PSG Genes in Vertebrates and Humans Suggests Sensitivity to Selection
  • Document date: 2013_4_16
    • ID: 1jogs44p_14
    Snippet: The phylogenetic trees were also inferred by using the Maximum Likelihood method based on the JTT matrix-based model. The tree with the highest log likelihood is presented. The topology of the tree was constructed using proml in Phylip v3.69 [38] . Initial tree(s) for the heuristic search were obtained automatically by applying Neighbor-Join and BioNJ algorithms to a matrix of pairwise distances estimated using a JTT model, and then selecting the.....
    Document: The phylogenetic trees were also inferred by using the Maximum Likelihood method based on the JTT matrix-based model. The tree with the highest log likelihood is presented. The topology of the tree was constructed using proml in Phylip v3.69 [38] . Initial tree(s) for the heuristic search were obtained automatically by applying Neighbor-Join and BioNJ algorithms to a matrix of pairwise distances estimated using a JTT model, and then selecting the topology with superior log likelihood value. The tree is drawn to scale, with branch lengths which were estimated using codeml of PAML [39] . The bootstrap values of trees in which the associated taxa clustered together shown next to the branches were obtained from 100 replicates.

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