[November 2023] We posted a pre-print about implementing move data stucture for cache-efficient string matching. Find it on BioRxv
[Fall 2023] I instructed a HEART course for incoming undergraduate students. The course was about an introduction to common exact and approximate string matching algorithms that are widely used for searching sequencing data. Find my slides here.
[August 2023] We posted a pre-print about classification of nanopore signal with a compressed pangenome index. Find it on BioRxv
[July 2023] Our paper about detecting isoform-level allelic imbalance by accounting for inferential uncertainty (SEESAW) was published in Genome Biology.
[May 2023] I presented our about indexing pangenomes with move structure in Workshop on Emerging Methods for Sequence Analysis at Penn State. Find my slides here.
[Fall 2022] I co-instructed (with Anna Liebhoff) a HEART course for incoming undergraduate students. The course was about an introduction to the application of software engineering in biomedical research.
[March 2022] Our paper about a rapid, accurate, and memory-frugal tool for quantification of single-cell RNA-seq data (alevin-fry) was published in Nature Methods.
[February 2022] I joined Langmead-lab in Johns Hopkins University as a postdoctoral fellow.
[January 2022] Our paper about accurate quantification analysis of metahenomics and metatranscriptomics samples (AGAMEMNON) was published in Genome Biology.
[December 2021] I successfully completed my Ph.D. in Computer Science from the University of Maryland. During my Ph.D., I had the privilege of working in the Combine-Lab with Dr. Rob Patro as my PI. The title of my dissertation is "Optimizing the accuracy of lightweight methods for short read alignment and quantification". Find it here. You can also access my presentation slides here.