With the rapid sequencing of many related genomes, comparative sequence analysis has emerged as one of the most important areas of computational biology. The fundamental tool of comparative sequence ...

The advent of ultra-high-throughput sequencing technology has captured the imagination of the biological sciences, and with good reason. Ten years ago, on 23 November 1999, the publicly funded human ...

The classic methodology of inferring a phylogenetic tree from sequence data is composed of two steps. First, a multiple sequence alignment (MSA) is computed. Then, a tree is reconstructed assuming the ...