LAMMPS for Coagulation Cascade Modeling

Compile source code

>> cd src/
>> make

Running simulations

>> cd ../case/nrbc # normal case, change to drbc for diabetic case

1st: run the system to equilibrium, without force

>> ../../src/lmp_stam < chan.equil.run

2nd: add a driven force and allow chemical species advection and diffusion

>> ../../src/lmp_stam < chan.rheo.run

3nd: turn on adhesion force, enable platelet adhesion on wall

>> ../../src/lmp_stam < chan.adr.run

Copyright

You are not allowed to use this repo for any commercial use or academic publication, unless a permission from the repo owner is given.

If you use this repo for your academic research, we require a citation to the following publication.

@article{yazdani2021integrating,
  title={Integrating blood cell mechanics, platelet adhesive dynamics and coagulation cascade for modelling thrombus formation in normal and diabetic blood},
  author={Yazdani, Alireza and Deng, Yixiang and Li, He and Javadi, Elahe and Li, Zhen and Jamali, Safa and Lin, Chensen and Humphrey, Jay D and Mantzoros, Christos S and Em Karniadakis, George},
  journal={Journal of the Royal Society Interface},
  volume={18},
  number={175},
  pages={20200834},
  year={2021},
  publisher={The Royal Society}