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encode-toolkit

ENCODE Toolkit — Genomics research infrastructure with 20 MCP tools, 47 skills, 14 database integrations, and 7 pipelines for Claude Code

★ 36 stars↓ 174/wkupdated 15d agogithub ↗
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84good
▣ Overview
License: AGPL-3.0Python 3.10+VersionSkillsToolsPipelinesDatabasesTestsCoverageClaude CodePyPI versionPyPI Downloadsnpm versionNPM DownloadsGitHub ClonesStatusSecurityProvenance
▣ Score BreakdownMCPScore = Σ(raw × weight)
DimensionRawWeighted
Security
35%
100
35.0
Freshness
25%
100
25.0
Adoption
20%
43
8.5
Quality
10%
100
10.0
Trust
10%
50
5.0
Total
83.5
⚿ Capabilities & Risk Explainer
fs readfs writenetworkexecsecrets
◆ Risk level: high
fs read + fs write + network + exec + secrets active — can execute code, access credentials, and make external network calls.
⚙ Install config
Claude Desktop · Cursor · Windsurf · VS Code (Copilot) · Claude Code
add to your MCP client config:
{
  "mcpServers": {
    "encode-toolkit-1": {
      "command": "npx",
      "args": [
        "-y",
        "encode-toolkit"
      ]
    }
  }
}
📈 Score historylast 33 snapshots
5/25/20267/6/2026 · 33 snapshots
⚙ Maintenance health
maintenance data not yet available — check back later.
⛁ Raw data
weekly downloads174
github stars36
forks5
open issues0
license✓ present
readme length32457 chars
last publish1d ago
last commit15d ago
last updated7d ago
install verified✓ pass · 12d ago
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