Our recent work on universal k-mer sets has been accepted as a paper to The 10th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB) in September, being held in Niagara Falls, NY. The work titled “Practical universal k-mer sets for minimizer schemes” is a collaboration with our summer iBRIC student from 2017 Fiyin Gbosibo, Carl Kingsford, and Guillaume Marçais. The preprint is now available (see Publications).
Our paper “More accurate transcript assembly via parameter advising“, co-authored with Kwanho Kim and Carl Kingsford, was accepted for inclusion at The 2019 ICML Workshop on Computational Biology on June 14th in Long Beach, CA. As a result I will also be attending the 2019 International Conference on Machine Learning (ICML). Links to the paper are listed (see Publications).
Kwanho Kim, who I have been working with since 2017, graduated today with his Masters of Science in Computational Biology. He successfully defended his thesis titled “Analyzing the influence of assessment metrics on automated transcript assembly parameter selection” on April 30 and will be starting a position at The Broad Institute this summer. Congratulations Kwanho!
I am in search of students to work on topics related to automated parameter selection. Contact me if you (or someone you know) is interested!