The Agent Skills Directory

[EXTERNAL_DOWNLOADS]: The skill facilitates the installation of the geniml package directly from the databio repository on GitHub and references the StarSpace tool from the facebookresearch organization as a necessary external dependency.
[INDIRECT_PROMPT_INJECTION]: The skill ingests untrusted data from multiple sources, creating a potential vector for indirect prompt injection.
Ingestion points: Processes genomic BED files, metadata CSV files, and AnnData (.h5ad) files as seen in SKILL.md, references/bedspace.md, and references/scembed.md.
Boundary markers: Instructions do not include delimiters or specific guardrails to prevent the agent from following instructions that might be embedded in the genomic data or metadata labels.
Capability inventory: The skill performs file system operations (writing BED/Parquet files), shell command execution (uniwig, cat, geniml CLI), and network requests (fetching models from Hugging Face and BED files via BBClient).
Sanitization: There is no evidence of validation or sanitization for the content of the ingested genomic or metadata files.
[COMMAND_EXECUTION]: The skill documentation provides and expects the execution of several shell-based workflows, including package management with uv, file concatenation with cat, and the use of specialized bioinformatics CLI tools like uniwig and the geniml suite.

geniml