Skill · em Dados, IA e pesquisa

etetoolkit

Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics.

Procedência

Origem: davila7/claude-code-templates
Caminho: cli-tool/components/skills/scientific/etetoolkit
Versão fixada: 57f899e5394bb8ca166f38eacae8f0853cbfe033
Licença: MIT
Espelhado em 25/09/2026
nenhum download no Claude Code Templates (lido em 25/09/2026)

Antes de instalar

6 arquivos · 82,4 KB · inclui 2 scripts que executam: scripts/quick_visualize.py, scripts/tree_operations.py

Instalar na sua CLI

O comando baixa a versão fixada (commit 57f899e) direto da origem, para a pasta que a CLI lê. Precisa de curl (macOS e Linux); no Windows não há comando, porque o Rook Labs é para macOS.

Claude Code

Neste projeto: instala em .claude/skills/etetoolkit/.

d=".claude/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.claude/skills/etetoolkit/.

d="$HOME/.claude/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

Neste projeto: instala em .agents/skills/etetoolkit/.

d=".agents/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.agents/skills/etetoolkit/.

d="$HOME/.agents/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

Neste projeto: instala em .agents/skills/etetoolkit/.

d=".agents/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.gemini/antigravity-cli/skills/etetoolkit/.

d="$HOME/.gemini/antigravity-cli/skills/etetoolkit"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/etetoolkit"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/api_reference.md" "$u/references/api_reference.md" \
  -o "$d/references/visualization.md" "$u/references/visualization.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/quick_visualize.py" "$u/scripts/quick_visualize.py" \
  -o "$d/scripts/tree_operations.py" "$u/scripts/tree_operations.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Peça ao Rook

Já usa o Rook Labs? Cole no chat do Rook: instale a skill https://rooklabs.sh/marketplace/cct.etetoolkit

Prévia do SKILL.md

---
name: etetoolkit
description: "Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics."
---

# ETE Toolkit Skill

## Overview

ETE (Environment for Tree Exploration) is a toolkit for phylogenetic and hierarchical tree analysis. Manipulate trees, analyze evolutionary events, visualize results, and integrate with biological databases for phylogenomic research and clustering analysis.

## Core Capabilities

### 1. Tree Manipulation and Analysis

Load, manipulate, and analyze hierarchical tree structures with support for:

- **Tree I/O**: Read and write Newick, NHX, PhyloXML, and NeXML formats
- **Tree traversal**: Navigate trees using preorder, postorder, or levelorder strategies
- **Topology modification**: Prune, root, collapse nodes, resolve polytomies
- **Distance calculations**: Compute branch lengths and topological distances between nodes
- **Tree comparison**: Calculate Robinson-Foulds distances and identify topological differences

**Common patterns:**

```python
from ete3 import Tree

# Load tree from file
tree = Tree("tree.nw", format=1)

# Basic statistics
print(f"Leaves: {len(tree)}")
print(f"Total nodes: {len(list(tree.traverse()))}")

# Prune to taxa of interest
taxa_to_keep = ["species1", "species2", "species3"]
tree.prune(taxa_to_keep, preserve_branch_length=True)

# Midpoint root
…

Ver todo o marketplace