Welcome to the KGX documentation

KGX is a utility library and set of command line tools for exchanging data in Knowledge Graphs (KGs).

The tooling here is partly generic but intended primarily for building the translator-knowledge-graph, and thus expects KGs to be [Biolink Model](https://biolink.github.io/biolink-model/) compliant.

The tool allows you to fetch (sub)graphs from one (or more) KG and create an entirely new KG.

The core data model is a Property Graph (PG), with the default representation using a networkx MultiDiGraph.

KGX supports Neo4j and RDF triple stores, along with other serialization formats such as TSV, CSV, JSON, JSON Lines, OBOGraph JSON, SSSOM, RDF NT, and OWL.

Documentation

Contents:

• Installation
  • Installation for users
  • Installation for developers
• KGX Specification
  • Introduction
  • KGX Format
  • Format Serializations
• KGX Schema
  • Overview
  • Technical Implementation
  • Transformation Details
  • Future Improvements
  • References
• Reference
  • Transformer
  • Source
  • Sink
  • Validator
  • KGX Command Line Interface
  • Graph Operations
  • Utilities
  • Prefix Manager
  • CURIE Lookup Service
  • Knowledge Graphs in Memory
• KGX transformation and validation examples
  • Using KGX as a module
  • Using KGX CLI
• KGX Developer Guide
  • Contents
  • Architecture
  • Design Principles
  • Conventions
  • Continuous Integration
  • Releases
  • Roadmap
• Data preparation for use with KGX
  • Preparing data files

Indices and tables

• Index

• Module Index

• Search Page