Phylogenetic analysis in R

babette is an R package to work with BEAST2

An automated pipeline for retrieving orthologous DNA sequences from GenBank in R

Create, modify and analyse phylogenetic trees in R

An R package that provides a base S4 class for comparative methods, incorporating one or more trees and trait data

Detection of outlier genes and species in phylogenomics

Implementing semantically rich NeXML I/O in R

R package containing datelife's core functionality

visualization of phylogenetic output files

R package to perform sensitivity analysis for comparative methods

R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2

The R package 'phylosamp' implements novel tools that estimate the probability of transmission between two cases given phylogenetic linkage and sample size calculations for phylogenetic studies.

Perform phylogenetic path analysis in R.

Performs MCMCglmm on multiple phylogenetic trees

An `R` package for various phylogenetic and evolutionary biology data manipulations

Phylogenetic pathway–dependent recognition of fixed substitutions and parallel mutations

R package to run BEAST2

Explore Temporal and Other Phylogenetic Signals

Open Software for Teaching Evolutionary Biology at Multiple Scales Through Virtual Inquiries

paleobuddy: an R package for simulating diversification dynamics, fossil records and phylogenies in R.