Computational Biophysics Workshop - Urbana, July 18-20, 2018

Program

(subject to changes)

Location: Beckman Institute, Room 5602

Wednesday, July 18:

09:00-09:30          Welcome
09:30-10:30          Introduction to Metabolic and Genetic Information Processing Cellular Networks, Zan Luthey-Schulten
10:30-11:00          Coffee Break
11:00-12:00          Methods for Stochastic, Spatially-Resolved Whole Cell Simulations, Zan Luthey-Schulten
12:00-12:30          Q & A
12:30-13:30          Lunch Break
13:30-14:30          Lattice Microbes in the Cloud: Easy Simulation Execution using Amazon Web Services, Mike Hallock
14:30-15:00          Coffee Break
15:00-16:30          Introduction to Scientific Python with Jupyter Notebooks (jupyter notebook), Tyler Earnest and Marcelo Melo
16:30-18:00          Python Tutorials
18:00                     Social Dinner

Thursday, July 19:

09:00-10:00          Overview of Lattice Microbes and pyLM, Mike Hallock
10:00-10:30          jLM: Next Generation Python Interface to LM (jupyter notebook), Tyler Earnest
10:30-11:00          Coffee Break
11:00-12:00          EXP-2-LM: Using Real Experimental Data to Build Cell Scale Models, Tyler Earnest
12:00-12:30          Q & A
12:30-14:00          Lunch Break
14:00-14:30          Overview of Lattice Microbes Tutorials, Tyler Earnest
14:30-18:00          Lattice Microbes Tutorials

Friday, July 20:

09:00-10:00          Quantitative Microscopy Pipeline for Building a Model of the Human Cell, Winfried Wiegraebe
10:00-11:00          Building Simulation Geometry from Scratch (jupyter notebook1, notebook2), Tyler Earnest
11:00-11:30          Coffee Break
11:30-12:30          Building Simulation Geometry from Data, Tyler Earnest
12:30-14:00          Lunch Break
14:00-14:30          Visualization of Cell Simulations with VMD, David Bianchi
14:30-16:30          Advanced Tutorials
16:30-17:00          LM Installation
17:00-18:00          Try Your Own Tutorials