The Agent Skills Directory

[EXTERNAL_DOWNLOADS]: The skill provides instructions for installing the Biopython library using standard package managers (pip, conda) and by cloning from its official GitHub repository.
[COMMAND_EXECUTION]: Provides patterns for executing external bioinformatics tools like ClustalW via the ClustalwCommandline wrapper. This is a standard feature for biological sequence alignment workflows.
[DATA_EXFILTRATION]: Includes instructions for interacting with NCBI databases using Entrez and BLAST APIs. These are intended network operations for the skill's domain, and the documentation correctly advises the user to set a contact email and adhere to rate-limiting guidelines to prevent service abuse.
[INDIRECT_PROMPT_INJECTION]: The skill describes an attack surface for processing untrusted biological data files (FASTA, FASTQ, PDB, etc.) which are then used in subsequent operations.
Ingestion points: Biological file parsing modules documented in SKILL.md (e.g., SeqIO.parse, AlignIO.read, PDBParser).
Boundary markers: Not applicable as data is parsed as structured biological objects rather than natural language.
Capability inventory: File system read/write access, network operations to NCBI servers, and local command execution for alignment tools.
Sanitization: The library's internal parsing logic validates the input data against biological file format specifications.

biopython