etetoolkit
No security findings. Scanned 1 time, most recently 2026-10-21.
Second scanner: NVIDIA SkillSpector
Independent static run, no language model, over the same files as the Cisco scan above. How the two scanners compare across the whole corpus: Two scanners, one corpus.
What this skill does
Analyzes, manipulates, compares, annotates, and visualizes phylogenetic or other hierarchical trees with ETE 4. Supports Newick/Nexus tree I/O, topology edits and pattern matching, Robinson-Foulds comparisons, gene-tree evolutionary events and reconciliation, NCBI/GTDB taxonomy, SmartView exploration, and publication rendering. Applies to existing trees after alignment and phylogenetic inference, rather than inferring trees from raw sequences.
- Package
- 9 files, 117 KB
- SKILL.md
- 1493 words, 12+ sections
- Code
- Python (2)
- Allowed tools
ReadWriteEditBashPython- License
- GPL-3.0-or-later
- Compatibility
- Bundled scripts require Python 3.10+ and ete4 4.4.0 (upstream metadata requires Python >=3.7). Public taxonomy acquisition needs internet access. SmartView uses a local browser/server; static PNG rendering needs ete4[render-sm] and Chrome/Chromium, and Qt PDF/SVG rendering needs ete4[treeview].
SKILL.md covers: ETE Toolkit 4 · Scope · Current Target · Installation · SmartView static PNG screenshots · Legacy Qt renderer for PNG, PDF, and SVG · Quick Start · Use an open file object for files; reserve strings for Newick text. · Search and annotate. · Keep selected tips while preserving pairwise branch-length distances. · Root and serialize explicitly. · Core Workflows
Findings
No findings. SAFE
What is in the package
| File | Kind | Size |
|---|---|---|
SKILL.md | doc | 13 KB |
references/api_reference.md | doc | 15 KB |
references/migration-ete3-to-ete4.md | doc | 12 KB |
references/review.md | doc | 5.4 KB |
references/taxonomy.md | doc | 11 KB |
references/visualization.md | doc | 13 KB |
references/workflows.md | doc | 16 KB |
scripts/quick_visualize.py | script | 16 KB |
scripts/tree_operations.py | script | 16 KB |
External hosts referenced
etetoolkit.github.io github.com pypi.org arxiv.org ftp.ncbi.nlm.nih.gov doi.org export.arxiv.org gtdb.ecogenomic.org www.ncbi.nlm.nih.gov
Hostnames that appear in the skill's files. Referencing a host is not a finding; compare against the findings above and the skill's stated purpose.
Package contents recorded 2026-10-22 at commit 593377bb0487. The scan above ran against the version current at scan time; the two can differ if the skill has since been updated.
What we checked
- Static analyzer. Pattern rules over SKILL.md and bundled files: known-bad commands, exfiltration URLs, secrets, obfuscation.
- Bytecode analyzer.
- Pipeline analyzer.
- Correlation analyzer.
- Behavioral analyzer. Checks what the skill asks the agent to do against what its description claims it does.
- Trigger analyzer. Looks for instructions that fire on conditions the user did not ask for.
What we did not check
- Runtime behaviour. The skill was not executed; findings come from reading its files.
- Anything fetched at install or run time, including remote scripts, package dependencies, and URLs the skill tells the agent to open.
- Content the analyzers cannot read: images, binaries, and some non-English text.
- Known scanner bypass classes. See the methodology and limitations page.
Sources
- Repository: https://github.com/K-Dense-AI/scientific-agent-skills
- Raw scan result: skills-etetoolkit-scan.json
- Badge for your README:
- Request a re-scan