Encode Toolkit

ammawla/encode-toolkitNOASSERTION⭐ 1🔧 0 tools

F5.5SpiderScore (registry)

MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments

Use cases:api-integrationdata-warehousecode-execution
⚠ Hard constraint applied: multiple critical issues forces F
Decision
Not Recommended
Confidence
90%

Encode Toolkit is not recommended — low score (5.51/10) with 6 critical issues.

Recommended Actions

  • high
    Run In Container
    6 critical vulnerabilities require isolation
  • high
    Limit Permissions
    Restrict tool access to minimum required scope

Do Not

  • ✗running in production without container isolation
  • ✗exposing this tool to untrusted input
Risk Flags (2)
  • critical
    sql_injection×6
    SQL injection — .execute() called with f-string (user input may reach query)
  • low
    no_input_validation×2
    MCP tool handler accepts raw string input without validation
How This Was Decided
  • positivew=0.5Overall quality score = 5.51/10 (grade F)
  • negativew=0.86 critical security issue(s) detected
  • positivew=0.3Tool description clarity score = 5.0/10
Source: SpiderRating automated security scanUpdated: 2026-03-13Protocol: v1.1

Description Quality

Composite: 5.0 / 10

3-Layer Breakdown

Description (38%)
5.0
Security (34%)
5.8
Metadata (28%)
5.8

Description Dimensions

Intent Clarity
5.0
Permission Scope
5.0
Side Effects
5.0
Capability Disclosure
5.0
Operational Boundaries
5.0

Security Analysis

5.8
Score
6
Critical
0
High
0
Medium
2
Low

Findings Redacted

Detailed security findings are hidden during the 90-day responsible disclosure window. Maintainers have been notified.

6 CRITICAL2 LOW

Metadata Health

Provenance (40%)
7.0
Maintenance (35%)
7.0
Popularity (25%)
2.2

Badge

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