This volume discusses the aspects of a phylogenetic analysis that go beyond basic
calculation of most parsimonious trees. Practical application of all principles discussed is …

Motivation TNT (a widely used program for phylogenetic analysis) includes an interpreter for
a scripting language, but that implementation is nonstandard and uses several conventions …

In recent years, several publications in computer science journals have proposed new
heuristic methods for parsimony analysis. This contribution discusses those papers …

Phylogenies are typically inferred from morphological data by applying maximum parsimony
to all coded characters. While studies often focus upon characters of particular types or from …

Phylogenetic reconstruction is vital to analyzing the evolutionary relationship of genes within
and across populations of different species. Nowadays, with next generation sequencing …

We present a new algorithm, ChemAlign, that uses physicochemical properties and
secondary structure elements to create biologically relevant multiple sequence alignments …

Researchers use multiple sequence alignment algorithms to detect conserved regions in
genetic sequences and to identify drug docking sites for drug development. In this …

We describe the Sage project, a new approach to software engineering for (fault-tolerant)
distributed applications. Sage uses the modal logic of knowledge and applies theoretical …