Commits · dfccf8a3fac920d84474b4142bf44de154efef20 · hubatsch / Frap Theory

Mar 17, 2022
- Different time steps work. alpha is now function. · dfccf8a3
  Lars Hubatsch authored 3 years ago
  
  dfccf8a3
- Creating matrix A is now a function make_A. · 40e50281
  Lars Hubatsch authored 3 years ago
  
  40e50281
- Seems to work. Now try with larger time steps after initial equilibration. · 5830c936
  Lars Hubatsch authored 3 years ago
  
  5830c936
- Small time step and setting one point right of boundary to 0 seems to help. · 4a4a5684
  Lars Hubatsch authored 3 years ago
  
  4a4a5684
- Comparison with Matlab. Realised oscillation problem is in the initial conditions. · 348a782c
  Lars Hubatsch authored 3 years ago
  
  348a782c
- Matrices for b and u are now output and plotted. · 681097c0
  Lars Hubatsch authored 3 years ago
  
  681097c0
Feb 22, 2022
- Works! · a341fe1f
  Lars Hubatsch authored 3 years ago
  
  a341fe1f
Feb 21, 2022
- Functions apparently run much faster in Julia than scripts! · 42424c78
  Lars Hubatsch authored 3 years ago
  
  42424c78
Feb 20, 2022
- Fixed Normalization (I). Cosmetics. · a0cd55aa
  Lars Hubatsch authored 3 years ago
  
  a0cd55aa
- First time step roughly works. · 8e0936dd
  Lars Hubatsch authored 3 years ago
  
  8e0936dd
- Starting work on effective droplet model in Julia. · dffdd958
  Lars Hubatsch authored 3 years ago
  
  dffdd958
Jan 15, 2022

Introduced a dip in phi_tot close to boundary. Commented out. · b33f9c7c

Lars Hubatsch authored 3 years ago

Problem with this: it doesn't cause the anticipated slow-down of
dynamics (interfacial resistance), since the mobility will now be
enhanced at the boundary.

b33f9c7c

Nov 24, 2021
- New attempt at effective droplet model in Matlab. Still not working, but · 9063b5b3
  Lars Hubatsch authored 3 years ago
  
  interesting for interfacial resistance.
  9063b5b3
Oct 26, 2021
- Introduce second reaction rate parameter. · 2c4a972a
  Lars Hubatsch authored 3 years ago
  
  2c4a972a
- Hacky version of preventing solver getting stuck. Count to ten, abort. · dc9df90a
  Lars Hubatsch authored 3 years ago
  
  dc9df90a
Oct 20, 2021
- Rename params_n to par_n. · 5fd3f81b
  Lars Hubatsch authored 3 years ago
  
  5fd3f81b
Oct 19, 2021
- Cosmetic changes to plotting and comments. · c3d01197
  Lars Hubatsch authored 3 years ago
  
  c3d01197
Oct 14, 2021
- Adapt comparison with Frank/Stefano/Jonathan solution to len(params)==12. · a9149aa2
  Lars Hubatsch authored 3 years ago
  
  a9149aa2
- Introduce params_n: now generalized input for more than one species via · a2137b72
  Lars Hubatsch authored 3 years ago
  
  structure. Reaction diffusion - here we come.
  a2137b72
Oct 13, 2021
- Update .gitignore. · 574a5c31
  Lars Hubatsch authored 3 years ago
  
  574a5c31
- Fokker Planck for P~25, eps=0.02. · 927b0c42
  Lars Hubatsch authored 3 years ago
  
  927b0c42
Sep 14, 2021
- Ellipsoid .geo file for EMBL application. · 162a3ad1
  Lars Hubatsch authored 3 years ago
  
  162a3ad1
- Plots for EMBL application. · 076315b6
  Lars Hubatsch authored 3 years ago
  
  076315b6
- Introduce half FRAP geometry for initial condition. · 36128899
  Lars Hubatsch authored 3 years ago
  
  36128899
- eLife Resubmission. · 149b4c79
  Lars Hubatsch authored 3 years ago
  
  149b4c79
- Changed D of product. · 734a75e5
  Lars Hubatsch authored 3 years ago
  
  734a75e5
- Change substrate initial condition. · f6d018b8
  Lars Hubatsch authored 3 years ago
  
  f6d018b8
Aug 31, 2021
- Two different mobilities and space-dependent reaction rate in · 63bb7686
  Lars Hubatsch authored 3 years ago
  
  Hammerhead/Ribozyme system.
  63bb7686
- Change substrate initial condition. · 59a93e43
  Lars Hubatsch authored 3 years ago
  
  59a93e43
- Legend and plot for scaffold-substrate system (Hammerhead/Ribozyme). · 07426b6b
  Lars Hubatsch authored 3 years ago
  
  07426b6b
Aug 27, 2021
- Simulate droplet diffusion in ellipsoidal cells-shaped volume. · f14f4d45
  Lars Hubatsch authored 3 years ago
  
  f14f4d45
Aug 10, 2021
- plot_sim can now work with two species. · fb9588a9
  Lars Hubatsch authored 3 years ago
  
  fb9588a9
- Start working on Hammerhead/Ribozyme reaction. Seems to work in principle. · b047d291
  Lars Hubatsch authored 3 years ago
  
  b047d291
Aug 09, 2021
- Starting work on dip in mobility. Not finished. · 6680ed59
  Lars Hubatsch authored 3 years ago
  
  6680ed59
- Merge branch 'master' of https://gitlab.pks.mpg.de/mesoscopic-physics-of-life/frap_theory · a514b114
  Lars Hubatsch authored 3 years ago
  
  a514b114
- Probably changed D for constant D case to D=1?? · 98f21d2d
  Lars Hubatsch authored 3 years ago
  
  98f21d2d
- Merge remote-tracking branch 'origin/master' · f0dbd45d
  Lars Hubatsch authored 3 years ago
  
  f0dbd45d
- Update plots for revisions at eLife. · 01485754
  Lars Hubatsch authored 3 years ago
  
  New plot for PLYS ATP spatial recovery. New plot for boundary condition PGL New plot for valley in cost function New plot for relative partition coefficient
  01485754
Apr 01, 2021
- Equal D across domain still seems to work, Compared visually in Jupyter. · 3d827599
  Lars Hubatsch authored 3 years ago
  
  3d827599
Mar 30, 2021
- Delete remnants of old mean cross jump length. · 3b56ab0f
  Lars Hubatsch authored 3 years ago
  
  3b56ab0f