easypheno.postprocess.results_analysis

Module Contents

Functions

summarize_results_per_phenotype_and_datasplit(results_directory_genotype_level, eval_metric = None)	Summarize the results for each phenotype and datasplit for all models and save in a file.
result_string_to_dictionary(result_string)	Convert result string saved in a .csv file to a dictionary
plot_heatmap_results(path_to_results_summary_csv, save_dir)	Generate a heatmap based on the results summary .csv file

easypheno.postprocess.results_analysis.summarize_results_per_phenotype_and_datasplit(results_directory_genotype_level, eval_metric=None)

Summarize the results for each phenotype and datasplit for all models and save in a file.

The following files will be created:

• at phenotype-folder level within results directories:

  • Detailed_results_summary_*PHENOTYPE*DATASPLIT-PATTERN*.xlsx: .xlsx-file containing detailed results for each phenotype and datasplit-maf pattern (e.g. with all runtime results etc.)

  • Results_summary**PHENOTYPE*DATASPLIT-PATTERN*.csv: .csv-file containing an overview of the performance of each model for a phenotype and datasplit-maf pattern combination

• at genotype-folder level within results directories (the one that was specified):

  • Results_summary_all_phenotypes*DATASPLIT-PATTERN*.xlsx: .xlsx-file containing an overview of the performance of each model on each phenotype used for this genotype matrix with the specified datasplit-maf pattern

  • Results_summary_all_phenotypes*EVALMETRIC*DATASPLIT-PATTERN*.csv: only overview sheet of Results_summary*DATASPLIT-PATTERN*.xlsx

Parameters

• results_directory_genotype_level (str) – results directory at the level of the name of the genotype matrix

• eval_metric (str) – eval metric to use for summary. Options (default given first): Regression: explained_variance, r2_score, rmse, mse. Classification: mcc, f1_score, accuracy, precision, recall.

easypheno.postprocess.results_analysis.result_string_to_dictionary(result_string)

Convert result string saved in a .csv file to a dictionary

Parameters

result_string (str) – string from .csv file

Returns

dictionary with info from .csv file

Return type

dict

easypheno.postprocess.results_analysis.plot_heatmap_results(path_to_results_summary_csv, save_dir)

Generate a heatmap based on the results summary .csv file

Parameters

• path_to_results_summary_csv (str) – path to the results summary .csv file

• save_dir (str) – directory to save the plots