Sentence examples for used to calculate phylogenetic from inspiring English sources

Alignments were first used to calculate phylogenetic trees with the maximum likelihood procedure on the MABL site using the option "approximate likelihood-ratio test" to verify the consistence of the tree branching.

SplitsTree V.4 was used to calculate phylogenetic networks (see [ 30] for a review of applications).

The manually curated alignments were used to calculate phylogenetic trees, using both the Neighbor Joining (NJ) and Phylogenetic Maximum Likelihood (PhyML) methods.

To analyze information content of raw data SplitsTree4 was used to calculate phylogenetic networks (see Huson and Bryant [ 109] for a review of applications).

The Neighbor-Joining (NJ) algorithm as implemented in MEGA v5.03 [ 25] was used to calculate phylogenetic trees from the Euclidean distance matrix.

For every informative SNP, the distance and compatibility of every other informative SNPs within 20 kb is used to calculate phylogenetic signal after combining the values into 100 bp bins.

The distance matrix was then used to calculate a phylogenetic tree using the BIONJ algorithm [24] and a neighbornet network [25] (Figures 3 & S2).

This alignment was used to calculate a phylogenetic tree using a least squares distance method with Jukes and Cantors distances on the DNA.

These models were then used to calculate a phylogenetic tree for each URA protein family using PhyML 3.4 [ 36].

Bayesian phylogeny inference, maximum likelihood, neighbour joining and maximum parsimony were used to calculate the phylogenetic trees of all genomes.

All sites (including gaps) were used to calculate the phylogenetic trees and reliability was tested by 1000 bootstrap repeats.