List the available bioinformatics pipelines. Returns each pipeline's id, a short description, and its read_type (short-read or long-read). Call this first to discover what can be run, then describe_pipeline for details.

Return the full manifest for one pipeline: its required inputs, tunable parameters, container image, and output file patterns. Call this before run_pipeline to learn exactly which inputs and params it expects.

Start a pipeline run and return a run_id to track it. Provide inputs (a map of input name to file path or value) and params (a map of parameter name to value), as described by describe_pipeline. The run executes asynchronously; poll get_run_status, then fetch get_results and get_provenance when it completes.

Get the current status of a run (queued, running, succeeded, or failed) by its run_id, as returned by run_pipeline.

Get the outputs of a run: each output file with its SHA-256 checksum and size in bytes, plus the run status. Use the checksums to verify results independently.

Get the Workflow Run RO-Crate provenance for a run: workflow version, container digests, tool versions, parameters, and input/output SHA-256 checksums, the full record needed to reproduce the run byte-for-byte.