otargen

otargen provides programmatic access to variant-centric statistical evidence from the Open Targets Genetics GraphQL API and converts nested GraphQL/JSON responses into tidy R data tables to support causal variant prioritization and drug target discovery.

Key Features:

• GraphQL query wrappers: Functions wrap Open Targets Genetics GraphQL queries to retrieve variant-centric statistical evidence.
• JSON parsing and transformation: Parses nested GraphQL/JSON responses and converts them into tidy R data tables (data.frames).
• Query coverage: Implements functions covering the query types exposed by the Open Targets Genetics GraphQL API.
• Plotting functions: Provides plotting functions that generate visualizations from the package's tidy data outputs.
• Interoperability: Targets GraphQL endpoints that are accessible from R and Python for programmatic data retrieval.

Scientific Applications:

• Causal variant prioritization: Integrates variant-centric statistical evidence from Open Targets Genetics to support prioritization of causal variants.
• Drug target discovery: Aggregates genetic association evidence to assist identification and evaluation of potential drug targets.

Methodology:

Executes GraphQL queries against Open Targets Genetics endpoints, parses nested GraphQL/JSON outputs, performs post-processing to convert results into tidy R data tables, and generates plots from those tables.