… Here we present a parallelization of quartet puzzling (Strimmer and von Haeseler, 1996), a
… or to visualize the phylogenetic content of the alignment (Strimmer and von Haeseler, 1997). …

… Arndt von Haeseler and Robert Lanfear contributed equally … mapping (Strimmer and von
Haeseler 1997) to visualize … Arndt von Haeseler and Robert Lanfear contributed equally to …

Nonparametric bootstrap has been a widely used tool in phylogenetic analysis to assess the
clade support of phylogenetic trees. However, with the rapidly growing amount of data, this …

Abstract Model-based molecular phylogenetics plays an important role in comparisons of
genomic data, and model selection is a key step in all such analyses. We present ModelFinder, …

The standard bootstrap (SBS), despite being computationally intensive, is widely used in
maximum likelihood phylogenetic analyses. We recently proposed the ultrafast bootstrap …

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 …

Structural variations are the greatest source of genetic variation, but they remain poorly
understood because of technological limitations. Single-molecule long-read sequencing has the …

Large phylogenomics data sets require fast tree inference methods, especially for maximum-likelihood
(ML) phylogenies. Fast programs exist, but due to inherent heuristics to find …

In recent years the maximum-likelihood method for reconstructing phylogenetic relationships
(Felsenstein 1981) has become more popular due to the arrival of powerful computers. The …

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 …