Research


I am interested in the mathematics, algorithms, and software that is useful in understanding biological evolution.  I have done research in computational biology and bioinformatics (CBB) and applied machine learning (ML) in bioinformatics.  More specifically, I do research in short read mapping, especially bisulfite-treated reads, and computational phylogeny, particularly distance methods related to the balanced minimum evolution criterion.  My master's thesis involved the Neighbor-Net algorithm and adaptive landscapes.  My PhD thesis is on improving short bisulfite-treated DNA read mapping.

My research has involved high performance computing with Java multi-threading and data structure optimization with algorithm engineering.

Although I primarily do research in CBB, I have a minor secondary interest in computer security and cryptography.



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