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psHarmonize: Facilitating reproducible large-scale pre-statistical data harmonization and documentation in R.

John J Stephen1, Padraig Carolan1, Amy E Krefman1

  • 1Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA.

Patterns (New York, N.Y.)
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PubMed
Summary
This summary is machine-generated.

The psHarmonize R package streamlines multi-study data analysis by automating data harmonization. This tool enhances the robustness of epidemiological investigations through efficient data integration and transformation.

Keywords:
R packagedata harmonizationdata integrationdata managementdata pooling

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Area of Science:

  • Epidemiology
  • Biostatistics
  • Data Science

Background:

  • Combining data from multiple studies enhances epidemiological investigation robustness.
  • Pre-statistical data harmonization is critical for efficient multi-study analysis.
  • Manual harmonization is time-consuming and prone to errors, especially with large datasets.

Purpose of the Study:

  • To introduce the psHarmonize R package for facilitating data harmonization.
  • To streamline the process of combining and transforming data from multiple studies.

Main Methods:

  • The psHarmonize R package combines multiple datasets.
  • It applies user-defined data transformation functions based on a "harmonization sheet."
  • The package generates harmonized datasets in long and wide formats, along with error logs and summary reports.

Main Results:

  • psHarmonize automates the combination of datasets and application of transformations.
  • It centralizes decision-making through a harmonization sheet.
  • The package produces error logs and summary reports for quality control.

Conclusions:

  • psHarmonize simplifies and improves the accuracy of data preparation for multi-study analyses.
  • The package is a valuable tool for researchers conducting joint analyses of multiple epidemiological studies.
  • It is expected to be a central component in the data preparation workflow for such studies.