9:30 am – 5:45 pm
Simulations
To Analyze
- OpenMM free Polymer sims
- Odyssey Matlab periodic bonds
OpenMM free Polymers
Only a single run, but not quite the right scaling — expect 0.60. And a y-intercept at 0. See previous simulations results using my monte carlo simulator in Matlab
This is still growing substantially faster than closest packing.
Running new simulations with more repeats (4) and smaller polymers (only up to 500 — the large ones really take forever).
Matlab Periodically bound polymers
Not enough simulation time for binding nodes to find each other. Some succeed, some do not.
Future development
- wrote to RC computing about installing OpenMM and openMM-polymer on Odyssey.
STORM
- imaging D04
- sample not too bright. Hopefully still enough localizations to map out the basic structure.