Overview

This project aims to assist users in performing data integration on biomedical data. It provides tools to streamline the process of integrating disparate biomedical datasets.

You can find the source code in our GitHub repository.

Contents:

• Installation
• Getting Started
  • Matching the table schema to GDC standard vocabulary
  • Generating a harmonized table
  • Generating a harmonized table with value mappings
  • Verifying the schema mappings
  • Viewing the column domains
  • Finding correct value mappings
  • Verifying multiple value mappings at once
  • Fixing remaining value mappings
  • Combining custom user mappings with suggested mappings
• Examples
• API Reference
  • match_schema()
  • top_matches()
  • match_values()
  • preview_domain()
  • merge_mappings()
  • materialize_mapping()
  • create_mapper()
  • MappingSpecLike