I am a research associate at Harvard University, working with Prof. Bill Hanage in the Center for Communicable Disease Dynamics at Harvard Chan School and Prof. Michael Baym in the Department of Biomedical Informatics at Harvard Medical School. My research lies at the intersection of computer science, mathematics, biology and epidemiology – I develop methods for rapid prediction of antibiotic resistance from point-of-care sequencing data obtained by mobile sequencing technologies.
My research involves software development. I am the lead developer of RASE, ProPhyle, Ococo, RNFtools, SAMsift, ProphAsm, DyMas and Disty McMatrixFace. I also participated in the development of Blind Friendly Maps, ProPhex, Seed-Kraken, Seed-Jellyfish and NanoSim-H, and occasionally contribute to large projects such as Bioconda or Snakemake.