Motivation: Phylogenetic tree-building methods use molecular data to represent the
evolutionary history of genes and taxa. A recurrent problem is to reconcile the various …

Background Next-generation sequencing technologies are rapidly generating whole-
genome datasets for an increasing number of organisms. However, phylogenetic …

In the post-genomic era, phylogenomics is a powerful and routinely-used tool to discover
evolutionary relationships between microorganisms. Inferring phylogenomic trees by …

Aim The increasing availability of molecular information has lifted our understanding of
species evolutionary relationships to unprecedent levels. However, current estimates of the …

Supermatrix and supertree analyses are frequently used to more accurately recover vertical
evolutionary history but debate still exists over which method provides greater reliability …

Structural phylogenomics refers to the combined use of evolutionary and structural
information in a bioinformatics analysis. The term phylogenomics refers to two distinct tasks …

Summary A tooL for Prokaryotic Phylogeny And Clustering Analysis (ALPPACA) is a
pipeline that allows both de-novo and reference-based phylogenetic analysis of prokaryotic …

The rapid increase in genomic and genome-scale data is resulting in unprecedented levels
of discrete sequence data available for phylogenetic analyses. Major analytical impasses …

Purpose One of our central research goals is to identify evolution's greatest innovations. The
space we're searching (ie, the entire tree of life) is vast and remains mostly uncharted …

Phylogenetic trees are used to represent the evolutionary relationship among various
groups of species. In this paper, a novel method for inferring prokaryotic phylogenies using …