Words similar to tree-puzzle

Example sentences for: tree-puzzle

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For the genome quartet #8 we calculated posterior probabilities under the model which takes ASRV into account with Strimmer and von Haeseler's [ 24 ] approach and with the MrBayes program version 2.01 [ 31 ] . TREE-PUZZLE 5.0 [ 56 ] was used to calculate posterior probabilities according to Strimmer and von Haeseler [ 24 ] . A discrete approximation of the gamma distribution [ 57 ] was used to describe ASRV.
Branch lengths and their confidence intervals were calculated with TREE-PUZZLE 5.0 [ 46 ] using the JTT or the HKY model for substitution respectively, and assuming an among site rate variation described by a gamma distribution.
Eight rate categories were used in TREE-PUZZLE [ 56 ] , and four rate categories were used in MrBayes [ 31 ] . The maps are available in the supplementary material.
Maximum likelihood pairwise distances are calculated using BLOSUM matrices [ 25 ] by a modified version of TREE-PUZZLE [ 34 ] . Neighbor joining trees are calculated by a modified version of NEIGHBOR from the PHYLIP package [ 35 ] http://evolution.genetics.washington.edu/phylip.html.