Gen3 Features

A list of Gen3 features

Gen3 is an open-source platform that enables the standing-up of data commons for managing, analyzing, and sharing research data. Below you can find an exhaustive list of Gen3 features.

Dictionary and structured data

  • Explore the graph in the dictionary page of Windmill:
    • Search keywords
    • Visualize possible paths between nodes
    • Download JSON or TSV format for node templates
  • Explore project graphs and nodes in Windmill:
    • Visualize graph model
    • Browse/download data for each node
  • Structured data submission (create, update, delete records) in JSON, TSV or CSV:
    • Submission page of Windmill
    • Gen3 SDK (Python, R)
  • Export structured data as a JSON, TSV or CSV file
  • Structured data is stored in Postgres databases
  • Flattened data:
    • Structured data can be flattened and stored in Elasticsearch by using our ETL tool
    • Explore the Elasticsearch structured data using Guppy
  • Generate fake data specific to a dictionary for testing
  • Import and export using the Portable Format for Biomedical Data (PFB): (Work in progress)
    • Import and export a dictionary
    • Import and export structured data

Data files

Data exploration and analysis

Access management and security