The Agent Skills Directory

[COMMAND_EXECUTION]: The skill provides a workflow_generator.py script that creates shell templates for bioinformatics analysis. This script implements secure coding practices by using a strict regex for path validation and shlex.quote for parameter escaping, which prevents command injection vulnerabilities when generating and running local workflows.
[EXTERNAL_DOWNLOADS]: The skill facilitates the installation of the deepTools package through official and trusted channels like PyPI and Bioconda. It also includes instructions for the agent to fetch citation metadata from arXiv, which is a well-known and reputable scientific repository.
[INDIRECT_PROMPT_INJECTION]: The skill processes genomic data files such as BAM and BED. The included validate_files.py utility performs basic format verification. Because these file formats are highly structured and intended for binary processing, the surface area for indirect prompt injection via data content is extremely limited.

deeptools