Projects

Tools for evolutionary genomics, phylogenetics, and computational biology.

Software

Identification and classification of homopolymeric tracts from reads

Reference-based alignment and search against aligned database

Supertree estimation from gene family trees, using matrix representation with distances

Phylogenetic exploration of SARS-CoV-2 sequences

Hierarchical Bayesian species tree estimation from multi-gene family data

Signature inference of gene family trees from anchoring species trees.

Python module to work with hyperspectral imaging data.

C library with low level functions for phylogenetic analyses

Hiearchical Bayesian Model for Viral Phylogenetic Recombination

(Experimental) multiple sequence alignment based on kalign3

(Experimental) thread-safe API-aware C library to supercede biomcmc-lib someday

Jupyter notebooks with analyses of experimental evolution of Salmonella biofilms

Analysis of the phylogenetic resolution of the rRNA operon

Critical evaluation of tree-based homology inference