Information theoretic generalized Robinson–Foulds metrics for comparing phylogenetic trees

MR Smith - Bioinformatics, 2020 - academic.oup.com
Abstract Motivation The Robinson–Foulds (RF) metric is widely used by biologists, linguists
and chemists to quantify similarity between pairs of phylogenetic trees. The measure tallies …

[HTML][HTML] Benchmarking of alignment-free sequence comparison methods

A Zielezinski, HZ Girgis, G Bernard, CA Leimeister… - Genome biology, 2019 - Springer
Background Alignment-free (AF) sequence comparison is attracting persistent interest driven
by data-intensive applications. Hence, many AF procedures have been proposed in recent …

The phylogenetic relationships of neosuchian crocodiles and their implications for the convergent evolution of the longirostrine condition

SS Groh, P Upchurch, PM Barrett… - Zoological Journal of the …, 2020 - academic.oup.com
Since their origin in the Late Triassic, crocodylomorphs have had a long history of
evolutionary change. Numerous studies examined their phylogeny, but none have …

Fossils improve phylogenetic analyses of morphological characters

N Mongiardino Koch… - Proceedings of the …, 2021 - royalsocietypublishing.org
Fossils provide our only direct window into evolutionary events in the distant past.
Incorporating them into phylogenetic hypotheses of living clades can help time-calibrate …

[HTML][HTML] Craniodental morphology and phylogeny of marsupials

RMD Beck, RS Voss, SA Jansa - Bulletin of the American Museum of …, 2022 - BioOne
The current literature on marsupial phylogenetics includes numerous studies based on
analyses of morphological data with limited sampling of Recent and fossil taxa, and many …

Handling logical character dependency in phylogenetic inference: extensive performance testing of assumptions and solutions using simulated and empirical data

TR Simões, OV Vernygora, BAS de Medeiros… - Systematic …, 2023 - academic.oup.com
Logical character dependency is a major conceptual and methodological problem in
phylogenetic inference of morphological data sets, as it violates the assumption of character …

Reassessing the phylogeny and divergence times of sloths (Mammalia: Pilosa: Folivora), exploring alternative morphological partitioning and dating models

DM Casali, A Boscaini, TJ Gaudin… - Zoological Journal of …, 2022 - academic.oup.com
Phylogenetic relationships among sloths (Folivora) have been extensively studied in the
past few decades using maximum parsimony approaches. Recently, Bayesian phylogenetic …

[HTML][HTML] Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches

RMD Beck, D de Vries, MC Janiak, IB Goodhead… - Journal of Human …, 2023 - Elsevier
There have been multiple published phylogenetic analyses of platyrrhine primates (New
World monkeys) using both morphological and molecular data, but relatively few that have …

Death is on our side: paleontological data drastically modify phylogenetic hypotheses

NM Koch, LA Parry - Systematic Biology, 2020 - academic.oup.com
Fossils are the only remaining evidence of the majority of species that have ever existed,
providing a direct window into events in evolutionary history that shaped the diversification …

[HTML][HTML] Mesozoic Notocupes revealed as the sister group of Cupedidae (Coleoptera: Archostemata)

YD Li, E Tihelka, S Yamamoto, AF Newton… - Frontiers in ecology …, 2023 - frontiersin.org
Despite encompassing only about 50 extant species, beetles of the suborder Archostemata
have a rich fossil history, being known from the Permian and dominating coleopteran …