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generate_figures.sh
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# figure 2
# echo fig 2b
# python3 allen_single_neurons_stimulus.py
# echo fig 2c
# python3 allen_single_neurons.py tau_C
# echo fig 2d
# python3 allen_single_neurons.py R_tot
# this
# echo fig 2a
python3 allen_grouped.py tau_C
# echo fig 2b
python3 allen_grouped.py tau_R
# echo fig 2c
python3 allen_grouped.py R_tot
# echo fig 2e sp
python3 allen_grouped.py tau_C spontaneous
# echo fig 2f sp
python3 allen_grouped.py tau_R spontaneous
# echo fig 2g sp
python3 allen_grouped.py R_tot spontaneous
# echo fig 2e bo
python3 allen_grouped.py tau_C --bo
# echo fig 2f bo
python3 allen_grouped.py tau_R --bo
# echo fig 2g bo
python3 allen_grouped.py R_tot --bo
# this
# echo fig 3a
python3 allen_hierarchy.py tau_C
# echo fig 3b
python3 allen_hierarchy.py tau_R
# echo fig 3c
python3 allen_hierarchy.py R_tot
# echo fig 2h bo
python3 allen_hierarchy.py tau_C --bo
# echo fig 2i bo
python3 allen_hierarchy.py tau_R --bo
# echo fig 2j bo
python3 allen_hierarchy.py R_tot --bo
figure 11
# echo fig 11a
python3 allen_hierarchy.py tau_C spontaneous
# echo fig 11b
python3 allen_hierarchy.py tau_R spontaneous
# echo fig 11c
python3 allen_hierarchy.py R_tot spontaneous
# echo hierarchy plot with firing rate
python3 allen_hierarchy.py firing_rate
# echo hierarchy plot with median ISI
python3 allen_hierarchy.py median_ISI
# echo hierarchy plot with CV
python3 allen_hierarchy.py CV
# figure 3
# echo fig 3a
python3 allen_violin.py tau_C
# echo fig 3b
python3 allen_violin.py tau_R
# echo fig 3c
python3 allen_violin.py R_tot
# figure 12
# echo fig 12
python3 allen_T0_hierarchy.py tau_C
# echo fig 12 sp
python3 allen_T0_hierarchy.py tau_C spontaneous
# figure 13
# echo fig 13
python3 allen_T0_hierarchy.py tau_C --Tmax500
# echo fig 13 sp
python3 allen_T0_hierarchy.py tau_C spontaneous --Tmax500
# figure 14
# echo fig 14
python3 allen_T0_hierarchy.py tau_R
# echo fig 14 sp
python3 allen_T0_hierarchy.py tau_R spontaneous
# Hierarchical bayesian analysis
# fc natural movie
# model comparison and predictive checks
# python3 allen_hierarchical_bayes_model_comparison.py tau_C
python3 allen_hierarchical_bayes_model_comparison.py tau_R
python3 allen_hierarchical_bayes_model_comparison.py R_tot
# posteriors hierarchy score model
# python3 allen_hierarchical_bayes_hierarchy_score.py tau_C
python3 allen_hierarchical_bayes_hierarchy_score.py tau_R
# python3 allen_hierarchical_bayes_hierarchy_score.py R_tot
# posteriors structure group model
# python3 allen_hierarchical_bayes_struct
# fc natural movie
# model comparison and predictive checks ure_groups.py tau_C
python3 allen_hierarchical_bayes_structure_groups.py tau_R
# python3 allen_hierarchical_bayes_structure_groups.py R_tot
# fc spontaneous
# model comparison and predictive checks
# python3 allen_hierarchical_bayes_model_comparison.py tau_C spontaneous
python3 allen_hierarchical_bayes_model_comparison.py tau_R spontaneous
python3 allen_hierarchical_bayes_model_comparison.py R_tot spontaneous
# posteriors hierarchy score model
# python3 allen_hierarchical_bayes_hierarchy_score.py tau_C spontaneous
python3 allen_hierarchical_bayes_hierarchy_score.py tau_R spontaneous
# python3 allen_hierarchical_bayes_hierarchy_score.py R_tot spontaneous
# posteriors structure group model
# python3 allen_hierarchical_bayes_structure_groups.py tau_C spontaneous
python3 allen_hierarchical_bayes_structure_groups.py tau_R spontaneous
# python3 allen_hierarchical_bayes_structure_groups.py R_tot spontaneous
# bo natural movie
# model comparison and predictive checks
# python3 allen_hierarchical_bayes_model_comparison.py tau_C --bo
python3 allen_hierarchical_bayes_model_comparison.py tau_R --bo
python3 allen_hierarchical_bayes_model_comparison.py R_tot --bo
# posteriors hierarchy score model
# python3 allen_hierarchical_bayes_hierarchy_score.py tau_C --bo
python3 allen_hierarchical_bayes_hierarchy_score.py tau_R --bo
# python3 allen_hierarchical_bayes_hierarchy_score.py R_tot --bo
# posteriors structure group model
# python3 allen_hierarchical_bayes_structure_groups.py tau_C --bo
python3 allen_hierarchical_bayes_structure_groups.py tau_R --bo
# python3 allen_hierarchical_bayes_structure_groups.py R_tot --bo
python3 allen_hierarchical_bayes_model_comparison.py tau_C
python3 allen_hierarchical_bayes_model_comparison.py tau_R
python3 allen_hierarchical_bayes_model_comparison.py R_tot
python3 allen_hierarchical_bayes_model_comparison.py tau_C --bo
python3 allen_hierarchical_bayes_model_comparison.py tau_R --bo
python3 allen_hierarchical_bayes_model_comparison.py R_tot --bo
python3 allen_hierarchical_bayes_model_comparison.py tau_C spontaneous
python3 allen_hierarchical_bayes_model_comparison.py tau_R spontaneous
python3 allen_hierarchical_bayes_model_comparison.py R_tot spontaneous