News & Events
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- June 05, 2017 - June 09, 2017:
Dr. Jonoska, Daniel, and Jasper attended UCNC 2017 at the University of Arkansas.
- May 19, 2017 - June 04, 2017:
Dr. Jérôme Durand-Lose visited the research group.
- May 17, 2017 - June 02, 2017:
Dr. Hendrik Jan Hoogeboom visited the research group.
- April 28, 2017:
Jasper received the Outstanding Scholar Award (photo) at the Pi Mu Epsilon Luncheon for the Epsilon (USF) Chapter (photo).
- April 09, 2017 - April 11, 2017:
Nathan Lazar visited the group from Oregon Health and Science University.
- March 22, 2017:
Ryan Arredondo visited the group from Denver.
- March 10, 2017:
Lukas Nabergall successfully defended his Master's thesis.
- February 12, 2017 - February 20, 2017:
Rafik Neme visited the group from Dr. Landweber's lab in Columbia University.
- September 04, 2016 - September 08, 2016:
Dr. Jonoska and Jasper attended the DNA22 Conference held in Munich, Germany.
- August 07, 2016 - August 26, 2016:
Abdulmelik Mohammed visited the research group from Aalto University in Helsinki, Finland.
Meetings will occur biweekly during the 2017 Fall semester on Mondays and Wednesdays at noon.
Show Older Meetings
- November 01, 2017:
Daniel reviewed the current issues with installing several C++ and/or Python based TDA programs on the group's main server. He discussed temporary alternatives for Kyle to employ Topological Data Analysis (TDA) on his data as well as long-term solutions for the issues. He also briefly talked about definitions related to his new hierarchical assembly conjecture. Brad discussed the proof idea for a conjecture he made on Monday's meeting about the relationship between the "gap vectors" of two ascending order equivalent DOWs.
- October 30, 2017:
The group reviewed the definitions Brad made or adapted for his work on word insertions for double occurrence words. Jasper has resumed work on phpMIDAS. Kyle has been adapting his Python code to process the data which the group recently received from Rafik. Derek is still working on getting the graph visualization to work on the STAGR database.
- October 25, 2017:
The group had an impromptu meeting with Rafik to discuss the paper and the database. Kyle began adapting the data from Rafik in preparation for applying Topological Data Analysis (TDA) via open source programs. Derek continued working on the graphing tool for the STAGR database. Lina is going to meet with Dr. Jonoska and Dr. Saito about which project(s) she will join.
- October 23, 2017:
Derek updated us on some progress with the functionality of the STAGR database. We discussed with Lina the potential biological implications of topological features of word graphs of double occurrence words corresponding to genome arrangements. We also discussed how phpMIDAS should be adaptable to different alignment algorithms.
- October 18, 2017:
Brad presented several findings on the "gaps" between two occurrence of the same letter in double occurrence words. Derek presented updates he has made on the graph visualization tool in his STAGR database. Daniel discussed program updates to the server.