Code used for postprocessing analyses in manuscript "Modeling brain dynamics in brain tumor patients using The Virtual Brain" (Aerts et al. 2018; eNeuro, 5 (3) ENEURO.0083-18.2018; DOI: https://doi.org/10.1523/ENEURO.0083-18.2018).
(1) Run TVBii code (for TVBii code see Schirner et al. 2018 eLife, https://elifesciences.org/articles/28927, https://github.com/BrainModes/The-Hybrid-Virtual-Brain)
- TVBii_initiate.sh
- TVBii_run.sh
(2) Perform parameter space exploration to identify optimal model parameters
- PSE.m
(3) Sanity checks model parameters:
- PSE_SanChecks.m: basic checks
- SanChecks_Ji.R: evaluate relationship between Ji, in-strength and ROI size
- ModelFit_SanChecks.R: evaluate model fit
(4) Postprocessing:
- GTA_SC.m: compute structural network topology measures
- descriptives.R: descriptive analyses
- regression_models.R: assess associations between fitted model parameters, structural network topology measures and cognitive performance measures