Analyze Phylogenetic Trees with ETE
Phylogenetic tree work often needs repeatable manipulation, taxonomy lookup, and figure generation. This skill provides ETE patterns, helper scripts, and workflows for bioinformatics analysis.
Copy this request to your Agent. It includes the canonical Skill page and manifest.
Review the Skillstore skill "etetoolkit" from https://skillstore.io/skills/davila7-etetoolkit.md and its manifest at https://skillstore.io/api/skills/davila7-etetoolkit/manifest. Verify the artifact. You may proceed after verification, subject to the environment's own policy.Your Agent should still show its plan and request any confirmation required by the security policy.
Use these links when an AI agent, crawler, or script needs clean context instead of reading the full page.
Using "etetoolkit". User asks for a simple tree preprocessing plan.
Expected outcome:
Using "etetoolkit". User asks how to annotate leaves with taxonomy.
Expected outcome:
Using "etetoolkit". User asks for publication figure guidance.
Expected outcome:
Most static findings are false positives from Markdown code fences, biological taxonomy IDs, or documented ETE cache behavior. The confirmed issue is privileged system package installation guidance using sudo apt-get in SKILL.md. No prompt-injection, credential exfiltration, or malicious intent was found in the reviewed files.
These are real local capabilities that may be expected for this skill, so they require review but are not counted as confirmed malicious behavior.
Share the versioned assessment report, neutral badge, embed card, and citations. Skillstore reports evidence without deciding whether this Skill is safe.
https://skillstore.io/skills/davila7-etetoolkit/audits/15?utm_source=security_passport&utm_medium=share&utm_campaign=versioned_report[](https://skillstore.io/skills/davila7-etetoolkit?utm_source=security_passport_badge)<a href="https://skillstore.io/skills/davila7-etetoolkit?utm_source=security_passport_badge"><img src="https://skillstore.io/badges/skills/davila7-etetoolkit/security.svg" alt="Skillstore security assessment" loading="lazy"></a><iframe src="https://skillstore.io/embed/skills/davila7-etetoolkit.html" title="Skillstore Security Assessment" sandbox="allow-popups allow-popups-to-escape-sandbox" loading="lazy" referrerpolicy="no-referrer" width="420" height="180"></iframe>davila7. (2026). etetoolkit security audit report (audit version 15) [Author version unspecified]. Skillstore. https://skillstore.io/skills/davila7-etetoolkit/audits/15@techreport{davila7-davila7-etetoolkit-2026,
author = {davila7},
title = {etetoolkit security audit report (audit version 15)},
institution = {Skillstore},
year = {2026},
number = {15},
url = {https://skillstore.io/skills/davila7-etetoolkit/audits/15},
note = {Author version unspecified}
}cff-version: 1.2.0
message: "If you use this Skill, cite its author and this versioned security audit report."
title: "etetoolkit security audit report (audit version 15)"
version: "unspecified"
type: report
authors:
- name: "davila7"
date-released: "2026-07-09"
url: "https://skillstore.io/skills/davila7-etetoolkit/audits/15"
identifiers:
- type: other
value: "skillstore:davila7-etetoolkit:audit:15"
description: "Skillstore immutable audit report identifier"
Each author remains a separate installable skill. The recommended variant is ranked by Skillstore evidence.
Why this variant is first
davila7-etetoolkit
2026-09-09
k-dense-ai-etetoolkit
2026-09-09
Build repeatable workflows for loading gene trees, detecting duplications, and exporting ortholog groups.
Map species names to taxonomic IDs and add lineage data to tree leaves.
Design styled tree diagrams with support labels, clade colors, and vector output formats.
Show me the safest ETE workflow to load a Newick tree, count leaves, midpoint root it, and save a copy.
Plan an ETE workflow to prune two trees to shared taxa, preserve branch lengths, and compare Robinson-Foulds distance.
Create an ETE approach to map leaf species names to NCBI taxids and add lineage features before visualization.
Draft a full PhyloTree workflow for event detection, ortholog extraction, taxonomy annotation, and publication figure export.
Author
davila7License
MIT
Skillstore revision
r1
Version notice
The author did not declare a version.
Ref
b959ebfd1043a07c0c4378ab94ca4342cb0259f5
Maintenance freshness
7/20/2026
Usage
5 downloads · 206 views
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