Analysis of Phylogenetics and Evolution with R

R programming in phylogenetics and evolution

APE: Analyses of Phylogenetics and Evolution in R language

UNLABELLED Analysis of Phylogenetics and Evolution (APE) is a package written in the R language for use in molecular evolution and phylogenetics. APE provides both utility functions for reading and writing data and manipulating phylogenetic trees, as well as several advanced methods for phylogenetic and evolutionary analysis (e.g. comparative and population genetic methods). APE takes advantage...

Molecular Phylogenetics and Evolution

The freshwater mussel family Hyriidae (Mollusca: Bivalvia: Unionida) has a disjunct trans-Pacific distribution in Australasia and South America. Previous phylogenetic analyses have estimated the evolutionary relationships of the family and the major infra-familial taxa (Velesunioninae and Hyriinae: Hyridellini in Australia; Hyriinae: Hyriini, Castaliini, and Rhipidodontini in South America), bu...

Molecular Evolution and Phylogenetics

We can place more than just organisms into trees: individual genes from the genomes of various organisms can also be placed into trees, and from these gene phylogenies, we can often infer the species phylogenies. Often, this is done with the geological record in mind: not all branches of the tree of life terminate in the present – there are many that end in the various mass extinctions that hav...

Molecular Phylogenetics and Evolution

This study unravels the evolution and biogeographic history of the globally distributed ant genus Crematogaster on the basis of a molecular phylogeny, reconstructed from five nuclear protein-coding genes and a total of 3384 bp of sequence data. A particular emphasis is placed on the evolutionary history of these ants in the Malagasy region. Bayesian and likelihood analyses performed on a datase...