Encode Toolkit

Encode Toolkit is an open-source MCP server, Claude plugin, and skill suite designed to enable natural language genomics data access, cross-referencing, and multi-database analysis directly within Claude Code and other compatible editors. It integrates with 14 major genomics databases, supports 20 API tools and 47 skills/pipelines, and powers interactive workflows such as searching ENCODE, cross-referencing GWAS, ClinVar, and GTEx, and generating publication-ready methods. Ideal for genomics researchers, data scientists, and bioinformaticians working with large-scale genomics datasets and literature.