Sentence examples for maximum likelihood topologies from inspiring English sources

For each set of comparisons, the first row represents comparison of unmodified maximum likelihood topologies.

Parsimony and maximum likelihood topologies (trees not shown) compared well to the Bayesian tree used in downstream analyses.

The large-scale Maximum Likelihood topologies recovered in this study agree broadly with previously published nematode phylogenies [ 7, 9, 10], recovering all major nematode clades and providing increased resolution at certain nodes.

To compare statistical supports of the Maximum Likelihood topologies with alternative placement of caryophyllales as i) basal to both rosids and asterids or iii) sister group of rosids, we generated alternative topologies using ETE v2 [ 84] and their likelihoods were computed for the same alignment with the same parameters.

We used Kishino–Hasegawa (KH) and Shimodaira–Hasegawa (SH) tests implemented in PAUP 4.0 beta 10 Win (Swofford 2002), both with parsimony or likelihood criteria, to test the null hypothesis of no difference between the two maximum likelihood topologies obtained from cpDNA and mtDNA.

This model depends on the Maximum Likelihood topology, which was inferred with PAUP [52] using the Hasegawa-Kishino-Yano evolutionary model [58] assuming that rates across sites vary according to a discretized gamma distribution [59].

For the concatenated alignments of all individual genes or selected genes in this study, the maximum likelihood topology was obtained through RAxML [58] web servers using the JTT model with invariable sites.

With the concatenate alignments we obtained the maximum likelihood topology through PHYML [ 59].

For instance, some groups were clearly better resolved in the Bayesian than in the maximum likelihood topology.

The results obtained with the two topologies being very similar, we only present the results obtain with the maximum likelihood topology, except if stated otherwise.

The resolved Maximum Likelihood topology shows strong support for all previously identified major clades within Solanaceae [ 22], and increased node support is observed particularly within Solanum.