DensiTree 2: Seeing trees through the forest

RR Bouckaert, J Heled - BioRxiv, 2014 - biorxiv.org
Abstract Motivation Phylogenetic analysis like Bayesian MCMC or bootstrapping result in a
collection of trees. Trees are discrete objects and it is generally difficult to get a mental grip …

Multilocus Species Trees Show the Recent Adaptive Radiation of the Mimetic Heliconius Butterflies

KM Kozak, N Wahlberg, AFE Neild… - Systematic …, 2015 - academic.oup.com
Müllerian mimicry among Neotropical Heliconiini butterflies is an excellent example of
natural selection, associated with the diversification of a large continental-scale radiation …

How many bootstrap replicates are necessary?

ND Pattengale, M Alipour… - … Molecular Biology: 13th …, 2009 - Springer
Phylogenetic Bootstrapping (BS) is a standard technique for inferring confidence values on
phylogenetic trees that is based on reconstructing many trees from minor variations of the …

treespace: Statistical exploration of landscapes of phylogenetic trees

T Jombart, M Kendall… - Molecular ecology …, 2017 - Wiley Online Library
The increasing availability of large genomic data sets as well as the advent of Bayesian
phylogenetics facilitates the investigation of phylogenetic incongruence, which can result in …

New methods for detecting lineage-specific selection

A Siepel, KS Pollard, D Haussler - Annual International Conference on …, 2006 - Springer
So far, most methods for identifying sequences under selection based on comparative
sequence data have either assumed selectional pressures are the same across all branches …

[图书][B] Computational phylogenetics: an introduction to designing methods for phylogeny estimation

T Warnow - 2017 - books.google.com
A comprehensive account of both basic and advanced material in phylogeny estimation,
focusing on computational and statistical issues. No background in biology or computer …

Phylogenetic analysis of Microlicieae (Melastomataceae), with emphasis on the re-circumscription of the large genus Microlicia

AFA Versiane, R Romero, M Reginato… - Botanical Journal of …, 2021 - academic.oup.com
Microlicieae are a monophyletic tribe comprising seven genera: Chaetostoma, Lavoisiera,
Microlicia ss, Poteranthera, Rhynchanthera, Stenodon and Trembleya. Microlicia ss includes …

A fast algorithm for computing geodesic distances in tree space

M Owen, JS Provan - IEEE/ACM Transactions on …, 2010 - ieeexplore.ieee.org
Comparing and computing distances between phylogenetic trees are important biological
problems, especially for models where edge lengths play an important role. The geodesic …

A large-scale systematic framework of Chinese snakes based on a unified multilocus marker system

JN Li, D Liang, YY Wang, P Guo, S Huang… - Molecular phylogenetics …, 2020 - Elsevier
Snakes are one of the most diverse groups of terrestrial vertebrates, with approximately
3500 extant species. A robust phylogeny and taxonomy of snakes is crucial for us to know …

A survey of multiple tree visualisation

M Graham, J Kennedy - Information Visualization, 2010 - journals.sagepub.com
This article summarises the current state of research into multiple tree visualisations. It
discusses the spectrum of current representation techniques used on single trees, pairs of …