Virtual Cell · Molecular Transport — Kling Labs

The segmented cell geometry is derived from exampleModels/Solver_Suite_6_2.xml
in https://github.com/virtualcell/vcell at commit
fd1d4bcaf81b7a5b4642683edf7d5186cc0ed9b3.

Changes: majority downsampling from 256 x 256 x 34 to 64 x 64 x 34;
removal of 15 disconnected voxels; RLE encoding; an additional compact preview.
The preparation script and source SHA-256 are included with the project.
Display surfaces are resampled and lightly smoothed. Calculations use voxel
interfaces, not the smoothed display meshes.

The browser solver and interface are independently implemented by Kling Labs.
The reaction structure follows the VCell Ran/cargo nuclear transport example.
Concentrations are normalized. The association parameter is chosen for this
teaching model; this is not an exact reproduction of the SBML kinetic model.
FRAP is a 3D adaptation inspired by VCell's Simple FRAP tutorial.
No affiliation, endorsement, medical prediction or clinical validation is implied.
The full VCell Java client, server and native solvers are not embedded here.

Upstream license, from https://github.com/virtualcell/vcell/blob/master/license.txt:

All code in the Virtual Cell software written by the Richard D. Berlin Center for
Cell Analysis and Modeling at the University of Connecticut Health Center is

Copyright (c) 1999-2011 University of Connecticut Health Center

and licensed under the MIT License (MIT):

Permission is hereby granted, free of charge, to any person obtaining a copy of
this software and associated documentation files (the "Software"), to deal in
the Software without restriction, including without limitation the rights to
use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of
the Software, and to permit persons to whom the Software is furnished to do so,
subject to the following conditions:

The above copyright notice and this permission notice shall be included in all
copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
THE SOFTWARE.