GISP_data_initial

Initial "play around" with GISP data with info on geographical location and sexual behaviour

Name		Name	Last commit message	Last commit date
Latest commit History 395 Commits
CIP_nn_2005		CIP_nn_2005
CIP_nn_2006		CIP_nn_2006
CIP_nn_2007		CIP_nn_2007
CIP_nn_2008		CIP_nn_2008
CIP_nn_2009		CIP_nn_2009
CIP_nn_2010		CIP_nn_2010
Graphs		Graphs
Graphs_all_fatures_weights		Graphs_all_fatures_weights
Models_no_weights		Models_no_weights
__pycache__		__pycache__
dir/x		dir/x
.DS_Store		.DS_Store
AMR_gonorrhea_workflow_with_sample_weights.ipynb		AMR_gonorrhea_workflow_with_sample_weights.ipynb
Becca_code.ipynb		Becca_code.ipynb
Bootstrap_from_TB_paper.ipynb		Bootstrap_from_TB_paper.ipynb
CIP_Resistant_disagregated.csv		CIP_Resistant_disagregated.csv
CIP_data_encode_prev.csv		CIP_data_encode_prev.csv
CIP_data_encode_prev_not_dropped.csv		CIP_data_encode_prev_not_dropped.csv
CIP_data_encoded.csv		CIP_data_encoded.csv
CIP_disaggregate.ipynb		CIP_disaggregate.ipynb
CIP_lr_2005.sav		CIP_lr_2005.sav
CIP_lr_2005_no_weights.sav		CIP_lr_2005_no_weights.sav
CIP_lr_2006.sav		CIP_lr_2006.sav
CIP_lr_2006_no_weights.sav		CIP_lr_2006_no_weights.sav
CIP_lr_2007.sav		CIP_lr_2007.sav
CIP_lr_2007_no_weights.sav		CIP_lr_2007_no_weights.sav
CIP_lr_2008.sav		CIP_lr_2008.sav
CIP_lr_2008_no_weights.sav		CIP_lr_2008_no_weights.sav
CIP_lr_2009.sav		CIP_lr_2009.sav
CIP_lr_2009_no_weights.sav		CIP_lr_2009_no_weights.sav
CIP_lr_2010.sav		CIP_lr_2010.sav
CIP_lr_2010_no_weights.sav		CIP_lr_2010_no_weights.sav
CIP_nn_2005.sav		CIP_nn_2005.sav
CIP_nn_2005_no_weights.sav		CIP_nn_2005_no_weights.sav
CIP_nn_2006.sav		CIP_nn_2006.sav
CIP_nn_2006_no_weights.sav		CIP_nn_2006_no_weights.sav
CIP_nn_2007.sav		CIP_nn_2007.sav
CIP_nn_2007_no_weights.sav		CIP_nn_2007_no_weights.sav
CIP_nn_2008.sav		CIP_nn_2008.sav
CIP_nn_2008_no_weights.sav		CIP_nn_2008_no_weights.sav
CIP_nn_2009.sav		CIP_nn_2009.sav
CIP_nn_2009_no_weights.sav		CIP_nn_2009_no_weights.sav
CIP_nn_2010.sav		CIP_nn_2010.sav
CIP_nn_2010_no_weights.sav		CIP_nn_2010_no_weights.sav
CIP_rf_2005.sav		CIP_rf_2005.sav
CIP_rf_2005_no_weights.sav		CIP_rf_2005_no_weights.sav
CIP_rf_2006.sav		CIP_rf_2006.sav
CIP_rf_2006_no_weights.sav		CIP_rf_2006_no_weights.sav
CIP_rf_2007.sav		CIP_rf_2007.sav
CIP_rf_2007_no_weights.sav		CIP_rf_2007_no_weights.sav
CIP_rf_2008.sav		CIP_rf_2008.sav
CIP_rf_2008_no_weights.sav		CIP_rf_2008_no_weights.sav
CIP_rf_2009.sav		CIP_rf_2009.sav
CIP_rf_2009_no_weights.sav		CIP_rf_2009_no_weights.sav
CIP_rf_2010.sav		CIP_rf_2010.sav
CIP_rf_2010_no_weights.sav		CIP_rf_2010_no_weights.sav
Change_switch_threshold_cipro.ipynb		Change_switch_threshold_cipro.ipynb
Check_CIPRO.ipynb		Check_CIPRO.ipynb
Check_binary_classification.ipynb		Check_binary_classification.ipynb
Checking_all_resistances.ipynb		Checking_all_resistances.ipynb
Data_preprocessing.ipynb		Data_preprocessing.ipynb
Diagram_feature_importance.ipynb		Diagram_feature_importance.ipynb
Difference_in_auROC_RF_2005.csv		Difference_in_auROC_RF_2005.csv
Efficacy_model_different_years.ipynb		Efficacy_model_different_years.ipynb
Functions_AMR_gonorrhea.py		Functions_AMR_gonorrhea.py
GISP20002019.csv		GISP20002019.csv
GISP_2000_to_2004_data.csv		GISP_2000_to_2004_data.csv
GISP_data_initial.code-workspace		GISP_data_initial.code-workspace
Graph_for_grant.ipynb		Graph_for_grant.ipynb
Graph_necessary_unecessary_by_year.ipynb		Graph_necessary_unecessary_by_year.ipynb
LOOCV_nn.ipynb		LOOCV_nn.ipynb
Logistic_regression.ipynb		Logistic_regression.ipynb
Models_no_weights.ipynb		Models_no_weights.ipynb
Multiprocessing_example.ipynb		Multiprocessing_example.ipynb
Neural_networks.ipynb		Neural_networks.ipynb
New_auROC_bootstrap.ipynb		New_auROC_bootstrap.ipynb
OneHotEncoding.ipynb		OneHotEncoding.ipynb
PI_temporal_CV_repeated.ipynb		PI_temporal_CV_repeated.ipynb
Paper_graphs_combined.ipynb		Paper_graphs_combined.ipynb
README.md		README.md
Random_forest_classifier.ipynb		Random_forest_classifier.ipynb
Revant_initial_analysis.ipynb		Revant_initial_analysis.ipynb
SHAP_analysis.ipynb		SHAP_analysis.ipynb
Tensorflow_trial.ipynb		Tensorflow_trial.ipynb
Underlying_LOOCV.ipynb		Underlying_LOOCV.ipynb
Utility_caclulation.ipynb		Utility_caclulation.ipynb
Worflow_for_paper_logistic_regression.ipynb		Worflow_for_paper_logistic_regression.ipynb
Workflow_AMR_gonorrhea_paper.ipynb		Workflow_AMR_gonorrhea_paper.ipynb
Workflow_for_paper.ipynb		Workflow_for_paper.ipynb
Workflow_for_paper_random_forest.ipynb		Workflow_for_paper_random_forest.ipynb
Workflow_paper_all_models.ipynb		Workflow_paper_all_models.ipynb
imporances_all_models_no_weights_and_count_features.csv		imporances_all_models_no_weights_and_count_features.csv
imporances_all_models_with_extra_counts.csv		imporances_all_models_with_extra_counts.csv
imporances_all_models_with_training.csv		imporances_all_models_with_training.csv
imporances_all_models_with_weights_and_count_features.csv		imporances_all_models_with_weights_and_count_features.csv
imporances_all_models_with_weights_and_count_features.numbers		imporances_all_models_with_weights_and_count_features.numbers
scrap.ipynb		scrap.ipynb
try_importing_TB.ipynb		try_importing_TB.ipynb

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