Publication link:

Reilly, L., Josvai, M., Kalluri, M., Anderson, C.L., Ni, H., Orland, K.M., Lang, D., Glukhov, A.V., Grandi, E., and Eckhardt, L.L. (2024). Modeling Idiopathic Ventricular Fibrillation Using iPSC Cardiomyocytes and Computational Approaches: A Proof-of-Concept Study. JACC: Clinical Electrophysiology. https://doi.org/10.1016/j.jacep.2024.07.014.

Packages and Software

• Matlab R2022b with optimization toolbox
• Intel compiler for C++ (icpc version 2021.6.0 [gcc version 9.4.0 compatibility])
• Sundials version 5.7 (For CVODE)

Folders

• Control_fitting: source code for fitting to control traces
• iVF_fitting: source code for fitting to iVF traces

Test runs

• Compile C++ code for iPSC-CMs

make clean;
make cvode_main_ipsc_baseline_05Hz
make cvode_main_ipsc_baseline_10Hz

• Matlab optimization using GA
  Run Matlab -> test_optimisation_ga.m

• Post analysis Run Matlab -> matlab_population_analysis.m (Example output in res_lim_800)

Debug:

• with new linux machines, if having 139 code wih segmentation error with the system() command wiht matlab, add setenv('LD_LIBRARY_PAHT","")
• modify the Makefile accordingly if running on a AMD machine or with G++