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.idea
.idea
 
 
Figures
Figures
 
 
Lambda_exploration_results_Kemp
Lambda_exploration_results_Kemp
 
 
Lambda_exploration_results_Wang
Lambda_exploration_results_Wang
 
 
Results_a_lambda_1
Results_a_lambda_1
 
 
Results_a_lambda_10
Results_a_lambda_10
 
 
Results_a_lambda_100
Results_a_lambda_100
 
 
Results_a_lambda_1000
Results_a_lambda_1000
 
 
Results_gen_model_HH_lambda_1000000
Results_gen_model_HH_lambda_1000000
 
 
Results_gen_model_Kemp_IVP
Results_gen_model_Kemp_IVP
 
 
Results_gen_model_Kemp_lambda_10
Results_gen_model_Kemp_lambda_10
 
 
Results_gen_model_Kemp_lambda_100
Results_gen_model_Kemp_lambda_100
 
 
Results_gen_model_Kemp_lambda_1000
Results_gen_model_Kemp_lambda_1000
 
 
Results_gen_model_Kemp_lambda_10000
Results_gen_model_Kemp_lambda_10000
 
 
Results_gen_model_Kemp_lambda_100000
Results_gen_model_Kemp_lambda_100000
 
 
Results_gen_model_Kemp_lambda_1000000
Results_gen_model_Kemp_lambda_1000000
 
 
Results_gen_model_Kemp_lambda_10000000
Results_gen_model_Kemp_lambda_10000000
 
 
Results_gen_model_Kemp_lambda_100000000
Results_gen_model_Kemp_lambda_100000000
 
 
Results_gen_model_Kemp_lambda_1000000_old
Results_gen_model_Kemp_lambda_1000000_old
 
 
Results_gen_model_Wang_IVP
Results_gen_model_Wang_IVP
 
 
Results_gen_model_Wang_lambda_1
Results_gen_model_Wang_lambda_1
 
 
Results_gen_model_Wang_lambda_10
Results_gen_model_Wang_lambda_10
 
 
Results_gen_model_Wang_lambda_100
Results_gen_model_Wang_lambda_100
 
 
Results_gen_model_Wang_lambda_1000
Results_gen_model_Wang_lambda_1000
 
 
Results_gen_model_Wang_lambda_10000
Results_gen_model_Wang_lambda_10000
 
 
Results_gen_model_Wang_lambda_100000
Results_gen_model_Wang_lambda_100000
 
 
Results_gen_model_Wang_lambda_1000000
Results_gen_model_Wang_lambda_1000000
 
 
Results_gen_model_Wang_lambda_10000000
Results_gen_model_Wang_lambda_10000000
 
 
Results_gen_model_Wang_lambda_100000000
Results_gen_model_Wang_lambda_100000000
 
 
Results_kemp_lambda_10000_start_at_truth
Results_kemp_lambda_10000_start_at_truth
 
 
Results_r_lambda_1
Results_r_lambda_1
 
 
Results_r_lambda_10
Results_r_lambda_10
 
 
Results_r_lambda_100
Results_r_lambda_100
 
 
Results_r_lambda_1000
Results_r_lambda_1000
 
 
Results_two_state_lambda_1
Results_two_state_lambda_1
 
 
Results_two_state_lambda_100
Results_two_state_lambda_100
 
 
Results_two_state_lambda_1000
Results_two_state_lambda_1000
 
 
Results_two_state_lambda_10000
Results_two_state_lambda_10000
 
 
Results_two_state_lambda_100000
Results_two_state_lambda_100000
 
 
Results_two_state_lambda_1000000
Results_two_state_lambda_1000000
 
 
Results_two_state_lambda_10000_start_at_truth
Results_two_state_lambda_10000_start_at_truth
 
 
Results_two_state_lambda_100_start_at_truth
Results_two_state_lambda_100_start_at_truth
 
 
Results_two_state_lambda_50000
Results_two_state_lambda_50000
 
 
Results_two_state_lambda_500000
Results_two_state_lambda_500000
 
 
Test_plot_output
Test_plot_output
 
 
ap_protocol
ap_protocol
 
 
.DS_Store
.DS_Store
 
 
.gitattributes
.gitattributes
 
 
.gitignore
.gitignore
 
 
README.md
README.md
 
 
best_betas_both_states.csv
best_betas_both_states.csv
 
 
generate_data.py
generate_data.py
 
 
inner_optimisation_scipy.py
inner_optimisation_scipy.py
 
 
ionch_conda_env.yml
ionch_conda_env.yml
 
 
ivp_inner.txt
ivp_inner.txt
 
 
kemp_two_states_and_conductance.py
kemp_two_states_and_conductance.py
 
 
lambda_exploration_kemp.txt
lambda_exploration_kemp.txt
 
 
lambda_exploration_scipy.txt
lambda_exploration_scipy.txt
 
 
lambda_exploration_scipy_fewer_iters.txt
lambda_exploration_scipy_fewer_iters.txt
 
 
lambda_exploration_wang.txt
lambda_exploration_wang.txt
 
 
load_protocols.py
load_protocols.py
 
 
output_a.txt
output_a.txt
 
 
output_kemp_model.txt
output_kemp_model.txt
 
 
output_r.txt
output_r.txt
 
 
output_two_states_start_at_truth.txt
output_two_states_start_at_truth.txt
 
 
output_two_states_varied_lambda.txt
output_two_states_varied_lambda.txt
 
 
pints_classes.py
pints_classes.py
 
 
plot_result_two_states.py
plot_result_two_states.py
 
 
plot_results_colloc_vs_ivp.py
plot_results_colloc_vs_ivp.py
 
 
plot_results_one_state.py
plot_results_one_state.py
 
 
protocol-staircaseramp.csv
protocol-staircaseramp.csv
 
 
requirements.txt
requirements.txt
 
 
run_for_a.py
run_for_a.py
 
 
run_for_r.py
run_for_r.py
 
 
scipy_inner_test.txt
scipy_inner_test.txt
 
 
setup.py
setup.py
 
 
test_knot_and_data_generation.py
test_knot_and_data_generation.py
 
 
try_all_with_scipy.py
try_all_with_scipy.py
 
 
try_ask_tell_parallelised.py
try_ask_tell_parallelised.py
 
 
try_ask_tell_two_states_segments.py
try_ask_tell_two_states_segments.py
 
 
try_directly_solving_ODE.py
try_directly_solving_ODE.py
 
 
try_pints_inner.py
try_pints_inner.py
 
 
two_states_kemp.py
two_states_kemp.py
 
 
varying_lambda_two_states.py
varying_lambda_two_states.py
 
 
varying_lambdas_for_hh.py
varying_lambdas_for_hh.py
 
 
varying_lambdas_for_kemp.py
varying_lambdas_for_kemp.py
 
 
varying_lambdas_for_wang.py
varying_lambdas_for_wang.py
 
 

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Parameter cascading optimisation framework for the ion channel model.

Using the B-spline collocation method for the ODE solution at every iteration of the parameter optimisation algorithm.

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a clean repo to run on cardiac server

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