The Agent Skills Directory

[EXTERNAL_DOWNLOADS]: The script scripts/update_schema.py fetches the latest BIDS schema and Extension Proposals (BEPs) from official sources (bids-specification.readthedocs.io and the bids-standard GitHub organization). These are trusted community resources for the neuroscience domain.
[COMMAND_EXECUTION]: The skill provides standard instructions for using neuroimaging CLI tools like heudiconv, dcm2bids, and bids-validator. These are used for data transformation and validation according to scientific standards.
[INDIRECT_PROMPT_INJECTION]: As the skill processes externally provided datasets (JSON sidecars, TSV phenotypic data, and directory structures), there is a theoretical surface for indirect prompt injection. However, the risk is negligible as the skill uses standard scientific libraries for parsing and the data typically originates from controlled research environments.
Ingestion points: Reads BIDS directory structures and metadata files (dataset_description.json, *.json, *.tsv) using pybids and bids-validator.
Boundary markers: Not explicitly defined in logic, but standard BIDS parsing libraries enforce strict schema validation.
Capability inventory: File system reads/writes for dataset organization; execution of standard neuroimaging CLI tools.
Sanitization: Relies on pybids and json/csv standard library parsers which include built-in sanitization for their respective formats.

bids