Upload readme.md

readme.md

@@ -0,0 +1,109 @@
+# Configuration File Instructions
+
+Below are the instructions to create a valid configuration file.
+
+## Configuration File Structure
+
+The configuration file should be in YAML format (.config file) and follow the structure outlined below:
+
+```yaml
+disease_label: <disease_label> mandatory only if the task prediction is Phenotype
+timePrediction: <timePrediction>
+timeWindow: <timeWindow>
+timebucket: <timebucket>
+radimp: <radimp>
+predW: <predW>
+diagnosis: <diagnosis>
+output: <output>
+chart: <chart>
+proc: <proc>
+meds: <meds>
+disease_filter: <disease_filter>
+icu_no_icu: <icu_no_icu>
+groupingICD: <groupingICD>
+select_diag: <select_diag>
+select_med: <select_med>
+select_proc: <select_proc>
+select_out: <select_out>
+select_chart: <select_chart>
+outlier_removal: <outlier_removal>
+outlier: <outlier>
+left_outlier: <left_outlier>
+```
+
+Replace the `<variable>` placeholders with the corresponding values specific to your use case. Detailed explanations of each variable and their valid values are provided in the next section.
+
+## Variable Definitions and Valid Values
+
+- `disease_label` (string): Specifies the disease label. Valid values: CAD, Heart Failure, CKD, COPD.
+- `timePrediction` (integer): Specifies the time prediction. Valid values depend on the task:
+  - For Phenotype task: 30
+  - For Mortality task: 0
+  - For Length of Stay task: Between 1 and 10 (inclusive)
+  - For Readmission task: Between 10 and 150 (inclusive), multiple of 10
+- `timeWindow` (string): Specifies the time window. Valid values:
+  - For Phenotype or Readmission task: Last X hours (with 24 <= X >= 72)
+  - For Mortality or Length of Stay tasks: First X hours (with 24 <= X >= 72)
+- `timebucket` (integer): Specifies the time bucket. Valid values: Between 1 and 6 (inclusive).
+- `radimp` (string): Specifies the imputation method. Valid values:
+  - No Imputation
+  - forward fill and mean
+  - forward fill and median
+- `predW` (integer): Specifies the prediction window. Valid values depend on the task:
+  - For Phenotype, Length of Stay, or Readmission tasks: 0
+  - For Mortality task: Between 2 and 8 (inclusive)
+- `diagnosis`, `output`, `chart`, `proc`, `meds` (boolean): Specifies whether to include each respective flag. Valid values: True or False.
+- `disease_filter` (string): Specifies the disease filter. Valid values:
+  - Heart Failure
+  - COPD
+  - CKD
+  - CAD
+  - No Disease Filter
+- `icu_no_icu` (string): Specifies the dataset type. Valid values: ICU.
+- `groupingICD` (string): Specifies the grouping ICD option. Valid values:
+  - Convert ICD-9 to ICD-10 and group ICD-10 codes
+  - Keep both ICD-9 and ICD-10 codes
+  - Convert ICD-9 to ICD-10 codes
+- `select_diag`, `select_med`, `select_proc`, `select_out`, `select_chart` (boolean): Specifies whether to select each respective option. Valid values: True or False.
+- `outlier_removal` (string): Specifies the outlier removal method. Valid values:
+  - No outlier detection
+  - Impute Outlier (default:98)
+  - Remove outliers (default:98)
+- `outlier` (integer): Specifies the outlier threshold. Valid values: Between 90 and 99 (inclusive).
+- `left_outlier` (integer): Specifies the left outlier threshold. Valid values: Between 0 and 10 (inclusive).
+
+## Example Configuration File
+
+Here's an example of a valid configuration file:
+
+```yaml
+disease_label: CAD
+timePrediction: 30
+timeWindow: Last 72 hours
+timebucket: 2
+radimp: forward fill and mean
+predW: 0
+diagnosis: True
+output: True
+chart: True
+proc: True
+meds: True
+disease_filter: No Disease Filter
+icu_no_icu: ICU
+groupingICD: Convert ICD-9 to ICD-10 and group ICD-10 codes
+select_diag: False
+select_med: False
+select_proc: False
+select_out: False
+select_chart: False
+outlier_removal: Impute Outlier (default:98)
+outlier: 98
+left_outlier: 0
+```
+
+Feel free to modify the values to fit your specific requirements.
+
+## Usage
+Provide the full path of your configuration file while calling the loading dataset function with the parameter config_path=`<path_to_config_file>`.
+To use the `check_config` function, pass the task name and the path to your configuration file as arguments:
+