HomoplasyFinder: a simple tool to identify homoplasies on a phylogeny.

ABSTRACT: A homoplasy is a nucleotide identity resulting from a process other than inheritance from a common ancestor. Importantly, by distorting the ancestral relationships between nucleotide sequences, homoplasies can change the structure of the phylogeny. Homoplasies can emerge naturally, especially under high selection pressures and/or high mutation rates, or be created during the generation and processing of sequencing data. Identification of homoplasies is critical, both to understand their influence on the analyses of phylogenetic data and to allow an investigation into how they arose. Here we present HomoplasyFinder, a java application that can be used as a stand-a-lone tool or within the statistical programming environment R. Within R and Java, HomoplasyFinder is shown to be able to automat

SUBMITTER: Crispell J 

PROVIDER: S-EPMC6412054 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature