Diversity and skepticism are vital for comparative biology: a response to Donoghue and Edwards (2019)

Model clades are vital for comparative biology, and ascertainment bias is not a problem in practice: a response to Beaulieu and O'Meara (2018)

(2019) Michael J. Donoghue et al.   AMERICAN JOURNAL OF BOTANY

Can we build it? Yes we can, but should we use it? Assessing the quality and value of a very large phylogeny of campanulid angiosperms

(2018) Jeremy M. Beaulieu et al.   AMERICAN JOURNAL OF BOTANY

Hidden state models improve state-dependent diversification approaches, including biogeographical models

(2018) Daniel S. Caetano et al.   EVOLUTION

Is BAMM Flawed? Theoretical and Practical Concerns in the Analysis of Multi-Rate Diversification Models

(2017) Daniel L. Rabosky et al.   SYSTEMATIC BIOLOGY

The abiotic and biotic drivers of rapid diversification in Andean bellflowers (Campanulaceae)

(2016) Laura P. Lagomarsino et al.   NEW PHYTOLOGIST

Non-equilibrium dynamics and floral trait interactions shape extant angiosperm diversity

(2016) Brian C. O'Meara et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Detecting Hidden Diversification Shifts in Models of Trait-Dependent Speciation and Extinction

(2016) Jeremy M. Beaulieu et al.   SYSTEMATIC BIOLOGY

Extinction can be estimated from moderately sized molecular phylogenies

(2015) Jeremy M. Beaulieu et al.   EVOLUTION

Short Tree, Long Tree, Right Tree, Wrong Tree: New Acquisition Bias Corrections for Inferring SNP Phylogenies

(2015) Adam D. Leaché et al.   SYSTEMATIC BIOLOGY

The Unsolved Challenge to Phylogenetic Correlation Tests for Categorical Characters

(2014) Wayne P. Maddison et al.   SYSTEMATIC BIOLOGY

Predicting the Ancestral Character Changes in a Tree is Typically Easier than Predicting the Root State

(2014) Olivier Gascuel et al.   SYSTEMATIC BIOLOGY

A Southern Hemisphere origin for campanulid angiosperms, with traces of the break-up of Gondwana

(2013) Jeremy M Beaulieu et al.   BMC EVOLUTIONARY BIOLOGY

Identifying Hidden Rate Changes in the Evolution of a Binary Morphological Character: The Evolution of Plant Habit in Campanulid Angiosperms

(2013) Jeremy M. Beaulieu et al.   SYSTEMATIC BIOLOGY

Evolutionary Inferences from Phylogenies: A Review of Methods

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

MODELING STABILIZING SELECTION: EXPANDING THE ORNSTEIN-UHLENBECK MODEL OF ADAPTIVE EVOLUTION

(2012) Jeremy M. Beaulieu et al.   EVOLUTION

Choosing the best ancestral character state reconstruction method

(2012) Manuela Royer-Carenzi et al.   MATHEMATICAL BIOSCIENCES

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

How Can We Improve Accuracy of Macroevolutionary Rate Estimates?

(2012) Tanja Stadler   SYSTEMATIC BIOLOGY

Understanding angiosperm diversification using small and large phylogenetic trees

(2011) S. A. Smith et al.   AMERICAN JOURNAL OF BOTANY

Seeing the Forest for the Trees: The Limitations of Phylogenies in Comparative Biology

(2011) Jonathan B. Losos   AMERICAN NATURALIST

Greedy Selection of Species for Ancestral State Reconstruction on Phylogenies: Elimination Is Better than Insertion

(2010) Guoliang Li et al.   PLoS One

ON PHYLOGENETIC TESTS OF IRREVERSIBLE EVOLUTION

(2008) Emma E. Goldberg et al.   EVOLUTION

More Taxa Are Not Necessarily Better for the Reconstruction of Ancestral Character States

(2008) Guoliang Li et al.   SYSTEMATIC BIOLOGY