FeatureExtraction

Introduction

An R package for generating features (covariates) for a cohort using data in the Common Data Model.

Features

Takes a cohort as input.
Generates baseline features for that cohort.
Default covariates include all drugs, diagnoses, procedures, as well as age, comorbidity indexes, etc.
Support for creating custom covariates.
Generate paper-ready summary table of select population characteristics.

Technology

FeatureExtraction is an R package, with some functions implemented in C++.

System Requirements

Requires R (version 3.2.2 or higher). Installation on Windows requires RTools. Libraries used in FeatureExtraction require Java.

Dependencies

DatabaseConnector
SqlRender

Getting Started

On Windows, make sure RTools is installed.
The DatabaseConnector and SqlRender packages require Java. Java can be downloaded from http://www.java.com.
In R, use the following commands to download and install FeatureExtraction:

install.packages("devtools")
library(devtools)
install_github("ohdsi/SqlRender") 
install_github("ohdsi/DatabaseConnector") 
install_github("ohdsi/FeatureExtraction")

Getting Involved

Vignette: Using FeatureExtraction
Vignette: Creating covariates using cohort attributes
Vignette: Creating custom covariate builders
Package manual: FeatureExtraction.pdf
Developer questions/comments/feedback: OHDSI Forum
We use the GitHub issue tracker for all bugs/issues/enhancements

License

FeatureExtraction is licensed under Apache License 2.0

Development

FeatureExtraction is being developed in R Studio.

Development status

Ready for use

Acknowledgements

This project is supported in part through the National Science Foundation grant IIS 1251151.

chrisknoll/FeatureExtraction