All simulated datasets used in the analysis of SignifiKANTE can be found in the directory data/sc_simulated. GRNBoost2-based reference GRNs on all thirty GTEx tissues in combination with "groundtruth" (DIANE-like) P-values and approximate P-values computed by SignifiKANTE with 100 target gene clusters are publicly accesible on Zenodo (https://doi.org/10.5281/zenodo.17581025).
Code for reproducing our simulated datasets can be found under scripts/simulate_sc_data. All scripts used for running SignifiKANTE on our HPC systems are conatined in scripts/fdr. All notebooks and scripts used for carrying out experiments and analyses on SingifiKANTE's FDR controlled GRNs are located in scripts/analysis. All plots shown in our manuscript were generated with notebooks located in scripts/plotting.
All our produced results underlying the plots of our manuscript are stored in results/, while results on simulated data are separated from all GTEx-based results in the subdirectory results/sc_simulated_data.