Work

iteRates: An R Package for Implementing a Parametric Rate Comparison on Phylogenetic Trees

Year: 2014

Type: article

Abstract: Patterns of diversification rate variation detected in phylogenetic hypotheses are frequently used to infer historical, ecological, and evolutionary processes. The parametric rate comparison (PRC) is a method for detecting rate variation in trees that models branch lengths as random variables drawn from familiar statistical distributions. iteRates is a library of functions for the R statistical computing environment for implementing PRC on phylogenetic trees. Here, we describe some of the functions in iteRates for subtree identification, tree manipulation, applying the PRC and K-clades PRC analyses, and conducting a whole-tree randomization test.

Source: Evolutionary Bioinformatics

DOI: 10.4137/ebo.s16487

Authors: James A. Fordyce, Premal Shah, Benjamin M. Fitzpatrick

Institutions: National Institute for Mathematical and Biological Synthesis, University of Tennessee at Knoxville, University of Pennsylvania

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $2,650

OpenAlex ID: W2082845073

FWCI: 0.82

Cites: 16

Cited by: 6

Related to: 10