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A nonparametric bootstrap search was conducted under the same heuristic search parameters for 1000 replicates, summarized as a 50% majority rule consensus tree.
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For each of 1,000 bootstrap replicates, a heuristic search was conducted with identical settings as in the original heuristic analysis.
For each of the 516 genes selected by MARE for supermatrix construction, trees were created for 100 rapid bootstrap replicates, with branch length optimization specified for these bootstraps ('-k'), and the final ML tree search was conducted using these bootstrap trees as starting trees ('-f a').
The search was conducted in English only.
The latest search was conducted in November of 2016.
The search was conducted in May 2017.
No additional search was conducted.
How the search is conducted.
Two thousand ML and bootstrap tree searches were conducted for analyses that applied a nucleotide substitution model.
For the ML analyses, full heuristic ML and bootstrap (200 pseudoreplicates) searches were conducted with 10 random addition replicates and tree bisection-reconnection branch swapping using the best-fit model in PAUP* 4.0b10 [55].
Tree searches were conducted for 1000 bootstraps with a final maximum likelihood search.
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