Scallop Parameter Advising accepted as a talk at ISMB 2018

I will be presenting my most recent work, titled “Automatically eliminating errors induced by suboptimal parameter choices in transcript assembly”, at the Machine Learning in Computational and Systems Biology (MLCSB) COSI at ISMB 2018 in Chicago. More details about the talk as well as slides will be posted before the meeting. (slides) (video)

I will also be presenting the ISCB-SC Education and Internships Committee’s poster a the Education COSI meeting at ISMB. This is a highlight of our previously published paper in PLOS Computational Biology (see Publications > Service).

“Asymptotically optimal minimizers schemes” accepted to ISMB

Soon after joining the Kingsford group I began talking with Guillaume Marçais about his work on minimizer schemes. This year I contributed to the most recent publication in this line of work which describes the asymptotic bounds for the densities of these schemes. This work was accepted for presentation at ISMB 2018 in Chicago, IL. A preprint of the manuscript is on bioRxiv (see Publications).

Springer Monograph Published

The book based on my dissertation written along with my PhD advisor John Kececioglu is now available! The work is a part of Springer’s Computational Biology series. The book contains a chapter that had not been previously published and updated results not previously in my dissertation.

ISCB Student Council Articles Published

Internships Article

The ISCB-SC Education and Internships committee do great work including running the internships program. Each year the EIC matches students in developing countries with willing labs in Europe or Australia. With the introduction of the Anna Tramontano fellowship they will start to have the financial support needed to increase this program. The paper we published in PLOS Computational Biology describes the program but the committee is happy to answer any questions. Also if you have room in your laboratory for an intern, the program is always looking for willing PIs.

Student Council Symposium-Africa 2017

Every other year the ISCB-SC runs four Student Council Symposia, US (co-located with ISMB), Europe (co-located with ECCB), Latin America (co-located with ISCB-LA) and most recently Africa (co-located with ISCB-Africa). I had the pleasure of helping to organize this year’s SCS-Africa meeting. The symposium was a great success and details about the talks held can be found in the conference highlights that we published in F1000Research.

Latex CV Conversion

I have recently converted by CV into Latex, this is something I have been meaning to do for a while but had not found the time for, my new CV can be found here as compared to the old formatting. Because I put a lot of time into customizing it I thought it would be helpful for others to have the source for it as well. I have posted the source on Github for anyone who wants to make the change themselves. This is an adaptation of Steve Tjoa’s original CV template.

I have included a customized bst file that reformats my name in the publications list(s), this can be adapted simply within the cv.tex file without having to edit the bst file yourself. The original template I used allows for multiple bibliographies so if you want to add sections that are not currently there it is quite simple. Using the unsrt bibliography style allows me to order the publications how I want them, I currently have them in decreasing publication year.