Sentence examples for bootstrap tree from the from inspiring English sources
For a set of miRNA sequences, we can always perform a multiple sequence alignment (MSA) and build a bootstrap tree from the alignment result.
The SH-test was then run comparing the maximum likelihood constrained tree to the unconstrained consensus Bayesian tree or to 100 bootstrap trees from the maximum likelihood analysis from PhyML.
Each of the eight combined multigene family and single-gene family phylogenomic trees (see fig. 1) were derived as follows: the corresponding sets of individual bootstrap trees (obtained from the ML analyses of the single-gene families) and the species trees derived from the DupTree analysis of the bootstrap trees from the multigene families (see above) were pooled into a single file.
Finally, we compared changes in the average taxon quartet similarity among bootstrap trees from the 3-gene to the 5-gene analysis for all taxa, just the 170 taxa with data from 5 genes, and just the 119 taxa with data from 3 genes.
We measured leaf stability of all taxa using bootstrap trees from MP analyses and the program RadCon [ 48].
For each experiment we produce 100 replicates and thus 100 bootstrap trees from which to compute the bootstrap support of each branch.
PHYML, using the same settings as described above, was first used to infer 100 ML bootstrap trees from each individual gene dataset, then the initial MP-EST species tree inference was repeated 100 times from each of the 248 individual bootstrap gene-tree replicates.
Statistical support for alternative hypotheses was determined by constructing a constraint trees for each alternate hypothesis and using the constraints to filter trees from each analysis (100 bootstrap trees from maximum-likelihood, 1000 trees from neighbor-joining analysis, and 320,000 trees from Bayes) in Paup* [120].
For each of the three densely sampled data sets, consensus supertrees were generated as follows: 1) the bootstrap trees obtained from the ML analysis of each considered single-gene family were pooled into one single data set.
In the subsequent ML search for the best scoring ML tree starting from each fifth bootstrap tree, the more accurate PROTCAT approximation was applied.
