The Agent Skills Directory

[COMMAND_EXECUTION]: The skill uses Python's subprocess module to call external bioinformatics command-line tools such as MAFFT, IQ-TREE 2, and FastTree. These commands are constructed using list-based arguments, which is a security best practice that prevents shell injection vulnerabilities.
[EXTERNAL_DOWNLOADS]: The skill instructions recommend installing standard scientific software from well-known and reputable repositories including Bioconda and PyPI. These are standard dependencies for the biological research domain.
[SAFE]: No malicious patterns such as prompt injection, data exfiltration, or obfuscation were detected. The skill's behavior aligns exactly with its stated purpose of performing evolutionary sequence analysis.

phylogenetics