HTAN: query and retrieve Human Tumor Atlas Network open-access data

The package has one seam: htan_con() opens a DuckDB connection over a versioned parquet snapshot of the ISB-CGC HTAN release tables. Every other function talks only to that connection, so the backing store (local fixture, HTTPS mirror, future BigQuery or Phase 2 adapter) can change without touching the user API.

Details

See vignette("HTAN") for a walk-through and adr/ in the source repository for design decisions.

Development

Almost all of the code, tests and documentation were written by an AI coding agent, Claude Code (Anthropic), working from the maintainer's design and under the maintainer's direction and review. The maintainer is responsible for the package and its maintenance. Commits written with the agent carry a Co-Authored-By: trailer in the source repository. No third-party code was copied into the package.

See also

Useful links:

• https://github.com/seandavi/HTAN

• https://seandavi.github.io/HTAN/

• Report bugs at https://github.com/seandavi/HTAN/issues

Author

Maintainer: Sean Davis seandavi@gmail.com (ORCID)

Authors:

• Sean Davis seandavi@gmail.com (ORCID)

Other contributors:

• National Cancer Institute (Grant U24CA289073) [funder]