Sentence examples for guide trees from inspiring English sources

Importantly, MUSCLE refines the alignment with a multitude of alternative guide trees and is not restricted to the guide tree chosen for progressive anchoring.

The guide tree is used for anchoring but not for the gapped global multiple sequence alignment, wherein alignments are optimized over a variety of guide trees muscle [44].

The use of multiple guide trees is a particularly important feature in microbial genomes, which are subject to lateral gene transfer.

We can see on the comparison plot that mBed guide trees are on average 'closer' to full distance matrix tree guide trees than SparseMap guide trees.

We demonstrate the accuracy of mBed guide trees by comparing these to randomised guide trees and to guide trees directly calculated by ClustalW [ 5].

The full matrix guide trees were taken as the baseline.

As an intermediate step we compared guide trees produced by mBed and SparseMap to guide trees derived from full distance matrices.

In terms of being useful for making guide trees, the method is equivalent to the PartTree algorithm [ 13] which also generates guide trees, very rapidly.

For guide trees reconstructed using Neighbour Joining, we recommend using guide trees on c n1/3taxa, for a small enough value of c.

For the remaining four test cases, the randomised Clustal guide trees are clearly inferior to both the default Clustal and mBed guide trees.

Modularity is especially important with respect to the guide trees involved in profile alignment, where the results from different guide trees (or no guide tree) can be compared.