PQ, a new program for phylogeny reconstruction.

ABSTRACT:

Background

Many algorithms and programs are available for phylogenetic reconstruction of families of proteins. Methods used widely at present use either a number of distance-based principles or character-based principles of maximum parsimony or maximum likelihood.

Results

We developed a novel program, named PQ, for reconstructing protein and nucleic acid phylogenies following a new character-based principle. Being tested on natural sequences PQ improves upon the results of maximum parsimony and maximum likelihood. Working with alignments of 10 and 15 sequences, it also outperforms the FastME program, which is based on one of the distance-based principles. Among all tested programs PQ is proved to be the least susceptible to long branch attraction. FastME outperforms PQ when

SUBMITTER: Penzar D 

PROVIDER: S-EPMC6186109 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature