“Locality sensitive hashing for the edit distance” conditionally accepted to ISMB/ECCB 2019

Related to the work we presented at ISMB last year, our new work on making a new hashing scheme that improves on Jaccard and Hamming distances for searching large sequences was recently conditionally accepted to ISMB/ECCB 2019 in Basel, Switzerland. This is work with Guillaume Marçais, Carl Kingsford, and Prashant Pandey. A preprint of the manuscript is on bioRxiv (see Publications).

ISCB-SC 2018 Symposia Article Published

Our editorial describing the symposia that were hosted by the ISCB Student Council over 2018 calendar year was recently published in F1000 Research. I am proud to say this is the first year I attended 2 out of the 3. While I was not a primary organizer for any of the events, all three were well received and the symposia chairs, the committee members, and all of the attendees are to thank.


With the publication of this article I am also ending my tenure on the ISCB-SC Executive Team, which has been a great experience.

Biological Data Science at Cold Spring Harbor Laboratory

I have been invited to give a talk at the Cold Spring Harbor Laboratory Biological Data Science meeting (#biodata18) November 7-10. My talk is preliminarily titled “Building an automated bioinformatician—More accurate, large-scale genomic discovery using parameter advising”.

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StringBio 2018

I will be giving a talk at the StringBio Workshop at UCF at the end of October. The workshop runs from the 25th to the 27th. I am scheduled to talk on the 26th in the afternoon. I am planning to talk about multiple sequence alignment accuracy estimation using Facet in the context of parameter advising. My slides are available here.

My colleague Guillaume Marçais is also speaking at the meeting, likely about methods related to minimizer ordering (some of which is joint with myself, Carl Kingsford, and others).

Workshop on the Future of Algorithms in Biology

I am part of the organizing team for the Workshop on the Future of Algorithms in Biology, an NSF-funded conference being held here at CMU on September 28 and 29. The slate of talks includes 15 speakers from a wide range of disciplines as well as shorter lightning talks, posters (including my own) and a panel discussion. More information is available on the FAB 2018 website.