Protocol Design

qtl-colocalization-study-planner

Designs QTL colocalization studies that connect eQTL, pQTL, sQTL, or related molecular QTL signals with GWAS loci. Always use this skill whenever a user wants to plan, scope, or structure a locus-level study asking whether a GWAS association and a molecular QTL association may re

91100Total Score
Core Capability
94 / 100
Functional Suitability
12 / 12
Reliability
10 / 12
Performance & Context
7 / 8
Agent Usability
15 / 16
Human Usability
7 / 8
Security
12 / 12
Maintainability
11 / 12
Agent-Specific
20 / 20
Medical Task
34 / 35 Passed
92Canonical input for qtl-colocalization-study-planner
5/5
92Variant A input for qtl-colocalization-study-planner
5/5
89Variant B input for qtl-colocalization-study-planner
5/5
87Edge input for qtl-colocalization-study-planner
5/5
87Stress input for qtl-colocalization-study-planner
5/5
87Scope Boundary input for qtl-colocalization-study-planner
5/5
87Adversarial input for qtl-colocalization-study-planner
4/5

Veto GatesRequired pass for any deployment consideration

Skill Veto✓ All 4 gates passed
✓
Operational Stability
System remains stable across varied inputs and edge cases
PASS
✓
Structural Consistency
Output structure conforms to expected skill contract format
PASS
✓
Result Determinism
Equivalent inputs produce semantically equivalent outputs
PASS
✓
System Security
No prompt injection, data leakage, or unsafe tool use detected
PASS
Research Veto✅ PASS — Applicable
DimensionResultDetail
Scientific IntegrityPASSNo fabricated references, DOIs, PMIDs, statistical values, or clinical data detected.
Practice BoundariesPASSNo diagnostic conclusions or unapproved treatment recommendations produced.
Methodological GroundPASSNo methodological fallacies detected; ethical compliance requirements noted where applicable.
Code UsabilityN/ANo code generated; Mode A skill

Core Capability94 / 100 — 8 Categories

Functional Suitability
Full marks (12/12); no significant issues detected.
12 / 12
100%
Reliability
Exceptional QTL-GWAS methodology coverage; Dataset Disclaimer present
10 / 12
83%
Performance & Context
Strong score (7/8); minor gaps noted.
7 / 8
88%
Agent Usability
Strong score (15/16); minor gaps noted.
15 / 16
94%
Human Usability
Strong score (7/8); minor gaps noted.
7 / 8
88%
Security
Full marks (12/12); no significant issues detected.
12 / 12
100%
Maintainability
Strong score (11/12); minor gaps noted.
11 / 12
92%
Agent-Specific
Description is among the most comprehensive in the collection for a highly specialized skill
20 / 20
100%
Core Capability Total94 / 100

Medical TaskExecution Average: 88.7 / 100 — Assertions: 34/35 Passed

92
Canonical
Canonical input for qtl-colocalization-study-planner
5/5 ✓
92
Variant A
Variant A input for qtl-colocalization-study-planner
5/5 ✓
89
Variant B
Variant B input for qtl-colocalization-study-planner
5/5 ✓
87
Edge
Edge input for qtl-colocalization-study-planner
5/5 ✓
87
Stress
Stress input for qtl-colocalization-study-planner
5/5 ✓
87
Scope Boundary
Scope Boundary input for qtl-colocalization-study-planner
5/5 ✓
87
Adversarial
Adversarial input for qtl-colocalization-study-planner
4/5 ✓
92
Canonical✅ Pass
Canonical input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 37/40|Specialized 55/60|Total 92/100
✅A1Core assertion 1 for canonical input
✅A2Core assertion 2 for canonical input
✅A3Core assertion 3 for canonical input
✅A4Core assertion 4 for canonical input
✅A5Core assertion 5 for canonical input
Pass rate: 5 / 5
92
Variant A✅ Pass
Variant A input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 37/40|Specialized 55/60|Total 92/100
✅A1Core assertion 1 for variant a input
✅A2Core assertion 2 for variant a input
✅A3Core assertion 3 for variant a input
✅A4Core assertion 4 for variant a input
✅A5Core assertion 5 for variant a input
Pass rate: 5 / 5
89
Variant B✅ Pass
Variant B input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 36/40|Specialized 53/60|Total 89/100
✅A1Core assertion 1 for variant b input
✅A2Core assertion 2 for variant b input
✅A3Core assertion 3 for variant b input
✅A4Core assertion 4 for variant b input
✅A5Core assertion 5 for variant b input
Pass rate: 5 / 5
87
Edge✅ Pass
Edge input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 35/40|Specialized 52/60|Total 87/100
✅A1Core assertion 1 for edge input
✅A2Core assertion 2 for edge input
✅A3Core assertion 3 for edge input
✅A4Core assertion 4 for edge input
✅A5Core assertion 5 for edge input
Pass rate: 5 / 5
87
Stress✅ Pass
Stress input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 35/40|Specialized 52/60|Total 87/100
✅A1Core assertion 1 for stress input
✅A2Core assertion 2 for stress input
✅A3Core assertion 3 for stress input
✅A4Core assertion 4 for stress input
✅A5Core assertion 5 for stress input
Pass rate: 5 / 5
87
Scope Boundary✅ Pass
Scope Boundary input for qtl-colocalization-study-planner

5/5 assertions passed.

Basic 35/40|Specialized 52/60|Total 87/100
✅A1Core assertion 1 for scope boundary input
✅A2Core assertion 2 for scope boundary input
✅A3Core assertion 3 for scope boundary input
✅A4Core assertion 4 for scope boundary input
✅A5Core assertion 5 for scope boundary input
Pass rate: 5 / 5
87
Adversarial✅ Pass
Adversarial input for qtl-colocalization-study-planner

4/5 assertions passed.

Basic 35/40|Specialized 52/60|Total 87/100
✅A1Core assertion 1 for adversarial input
✅A2Core assertion 2 for adversarial input
✅A3Core assertion 3 for adversarial input
✅A4Core assertion 4 for adversarial input
❌A5Core assertion 5 for adversarial input
Pass rate: 4 / 5
Medical Task Total88.7 / 100

Key Strengths

  • Comprehensive QTL/GWAS methodology coverage including colocalization, fine-mapping, MR follow-up, functional annotation
  • Ancestry and LD alignment requirements address the most critical QTL colocalization failure mode
  • Explicit prohibition on equating colocalization with causality/mediation/target validation proof
  • Mandatory Dataset Disclaimer for all named datasets/repositories prevents false resource claims