High-Throughput Phenotyping with EHR using a Common Automated Pipeline

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Documentation for package ‘PheCAP’ version 1.2.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

PheCAP-package	High-Throughput Phenotyping with EHR using a Common Automated Pipeline
ehr_data	A Synthetic EHR Dataset
PheCAP	High-Throughput Phenotyping with EHR using a Common Automated Pipeline
PhecapData	Define or Read Datasets for Phenotyping
PhecapSurrogate	Define a Surrogate Variable used in Surrogate-Assisted Feature Extraction (SAFE)
phecap_generate_dictionary_file	Generate a Dictionary File for Note Parsing
phecap_perform_majority_voting	Perform Majority Voting on the CUIs from Multiple Knowledge Sources
phecap_plot_roc_curves	Plot ROC and Related Curves for Phenotyping Models
phecap_predict_phenotype	Predict Phenotype
phecap_run_feature_extraction	Run Surrogate-Assisted Feature Extraction (SAFE)
phecap_train_phenotyping_model	Train Phenotyping Model using the Training Labels
phecap_validate_phenotyping_model	Validate the Phenotyping Model using the Validation Labels