The Agent Skills Directory

[COMMAND_EXECUTION]: The skill includes a helper script (workflow_generator.py) that produces shell scripts for ChIP-seq and RNA-seq pipelines. This generator implements strong security controls, including character-whitelist regular expressions and shell-safe quoting (via shlex.quote) to ensure that user-provided file names cannot be used to inject malicious shell commands into the output scripts.
[EXTERNAL_DOWNLOADS]: The documentation directs users to download and install the deepTools package (version 3.5.6) from established, reputable sources such as PyPI and Bioconda. These are well-known repositories within the scientific and developer communities.
[SAFE]: A thorough analysis of the skill's instruction files and Python scripts found no evidence of prompt injection, data exfiltration, obfuscation, or persistence mechanisms. The toolset is designed for legitimate genomic data processing and exhibits no suspicious or unauthorized behaviors.

deeptools