Abstract IQ-TREE (http://www. iqtree. org, last accessed February 6, 2020) is a user-friendly
and widely used software package for phylogenetic inference using maximum likelihood …

This article presents W-IQ-TREE, an intuitive and user-friendly web interface and server for
IQ-TREE, an efficient phylogenetic software for maximum likelihood analysis. W-IQ-TREE …

In phylogenomics the analysis of concatenated gene alignments, the so-called supermatrix,
is commonly accompanied by the assumption of partition models. Under such models each …

Amino acid substitution models play a crucial role in phylogenetic analyses. Maximum
likelihood (ML) methods have been proposed to estimate amino acid substitution models; …

Objectively delimiting species boundaries remains an important challenge in systematics
and becomes urgent when unresolved taxonomy complicates conservation and recovery …

For a set of binary unrooted subtrees generating all binary unrooted trees compatible with
them, ie generating their stand, is one of the classical problems in phylogenetics. Here, we …

How best can we summarize sets of phylogenetic trees? Systematists have relied heavily on
consensus methods, but if tree distributions can be partitioned into distinct subsets, it may be …

The age, content and inter-order relationships of crown Lissamphibia remain a debated
topic in vertebrate systematics. Recent phylogenetic analyses of fossil amphibians were …

The execution times of likelihood-based phylogenetic inference tools for Maximum
Likelihood or Bayesian inference are dominated by the Phylogenetic Likelihood Function …

Background The pattern of data availability in a phylogenetic data set may lead to the
formation of terraces, collections of equally optimal trees. Terraces can arise in tree space if …