Current Research Projects


Although the laboratory methods for generating genetic sequence data have advanced remarkably in recent years, the computational methods used to analyze and glean understanding from this data have not advanced as dramatically.  This rapid increase in biological sequence data and the development of new technology has prompted many new computational problems that have not been sufficiently addressed.


My research lab resolves these computational problems by developing holistic, multi-omics tools that answer key biological questions. In particular, we work on the following problems: (1) development of optical mapping data analysis methods, (2) creation of automated misassembly detection programs, and (3) advancement of computational analysis of antimicrobial resistance data.


We have active, funded research projects on a variety of topics including: (a) developing novel ways to track and monitor antimicrobial (e.g., antibiotic) resistance, (b) developing new techniques to error correct and assemble optical mapping data, and (c) creating scalable methods for aligning reads to thousands of genomes.