We develop Free Software and algorithms for measuring mutation rates in genomes, and for classifying conserved elements into functional classes according to the "signature" of natural selection at the sequence level.
Our take on bioinformatics includes a preference, where possible, for rigorous stochastic process models, rather than heuristic approaches. For some common types of mutation (e.g. substitutions, indels) probabilistic models are reasonably tractable and can yield quick results. Other mutations (e.g. duplications, transpositions, recombination) present tougher challenges.
Our goal is to advance the realism of evolutionary modeling while developing practical applications of the theory, such as software for comparative genefinding or functional genomics.
- List of Research Topics