Selected article for: "best fit model and maximum likelihood"
Author: Stenglein, Mark D.; Jacobson, Elliott R.; Wozniak, Edward J.; Wellehan, James F. X.; Kincaid, Anne; Gordon, Marcus; Porter, Brian F.; Baumgartner, Wes; Stahl, Scott; Kelley, Karen; Towner, Jonathan S.; DeRisi, Joseph L.
Title: Ball Python Nidovirus: a Candidate Etiologic Agent for Severe Respiratory Disease in Python regius
  • Document date: 2014_9_9
    • ID: rb3qdunj_57
    Snippet: Maximum-likelihood (ML) analysis was performed using the RAxML software tool on the CIPRES server (86) , with gamma-distributed rate variation and a proportion of invariant sites. The amino acid substitution model with the best fit using ProtTest was selected. Gill-associated virus was used as an outgroup. Bootstrap analysis was used to test the strength of the tree topology (1,000 resamplings) (87) . Numbers of bootstrap replicates were determin.....
    Document: Maximum-likelihood (ML) analysis was performed using the RAxML software tool on the CIPRES server (86) , with gamma-distributed rate variation and a proportion of invariant sites. The amino acid substitution model with the best fit using ProtTest was selected. Gill-associated virus was used as an outgroup. Bootstrap analysis was used to test the strength of the tree topology (1,000 resamplings) (87) . Numbers of bootstrap replicates were determined using the stopping criteria of Pattengale et al. (88) .

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