rotl: an R package to interact with the Open Tree of Life data

A simple approach for maximizing the overlap of phylogenetic and comparative data

(2016) Matthew W. Pennell et al.   Methods in Ecology and Evolution

pez: phylogenetics for the environmental sciences

(2015) William D. Pearse et al.   BIOINFORMATICS

Synthesis of phylogeny and taxonomy into a comprehensive tree of life

(2015) Cody E. Hinchliff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Fossil Calibration Database—A New Resource for Divergence Dating

(2015) Daniel T. Ksepka et al.   SYSTEMATIC BIOLOGY

RNeXML: a package for reading and writing richly annotated phylogenetic, character and trait data inr

(2015) Carl Boettiger et al.   Methods in Ecology and Evolution

geiger v2.0: an expanded suite of methods for fitting macroevolutionary models to phylogenetic trees

(2014) Matthew W. Pennell et al.   BIOINFORMATICS

paleobioDB: an R package for downloading, visualizing and processing data from the Paleobiology Database

(2014) Sara Varela et al.   ECOGRAPHY

rAvis: An R-Package for Downloading Information Stored in Proyecto AVIS, a Citizen Science Bird Project

(2014) Sara Varela et al.   PLoS One

An integrative view of phylogenetic comparative methods: connections to population genetics, community ecology, and paleobiology

(2013) Matthew W. Pennell et al.   Annals of the New York Academy of Sciences

phyloGenerator: an automated phylogeny generation tool for ecologists

(2013) William D. Pearse et al.   Methods in Ecology and Evolution

Lost Branches on the Tree of Life

(2013) Bryan T. Drew et al.   PLOS BIOLOGY

Evolutionary Inferences from Phylogenies: A Review of Methods

(2012) Brian C. O'Meara   Annual Review of Ecology Evolution and Systematics

rfishbase: exploring, manipulating and visualizing FishBase data from R

(2012) C. Boettiger et al.   JOURNAL OF FISH BIOLOGY

NeXML: Rich, Extensible, and Verifiable Representation of Comparative Data and Metadata

(2012) Rutger A. Vos et al.   SYSTEMATIC BIOLOGY

Treebase: an R package for discovery, access and manipulation of online phylogenies

(2012) Carl Boettiger et al.   Methods in Ecology and Evolution

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Phylocom: software for the analysis of phylogenetic community structure and trait evolution

(2008) Campbell O. Webb et al.   BIOINFORMATICS