Data Analysis

variant-pathogenicity-predictor

Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity.

86100Total Score

Core Capability

83 / 100

Functional Suitability

11 / 12

Reliability

10 / 12

Performance & Context

8 / 8

Agent Usability

13 / 16

Human Usability

7 / 8

Security

9 / 12

Maintainability

9 / 12

Agent-Specific

16 / 20

Medical Task

18 / 20 Passed

100Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

4/4

92Use this skill for data analysis tasks that require explicit assumptions, bounded scope, and a reproducible output format

4/4

91Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

4/4

89Packaged executable path(s): scripts/main.py

4/4

64End-to-end case for Scope-focused workflow aligned to: Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

2/4

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

Dimension	Result	Detail
Scientific Integrity	PASS	No scientific-integrity problem was surfaced because the package did not claim more than the available records, article text, or script evidence supported.
Practice Boundaries	PASS	Practice boundaries held because the package remained focused on Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity rather than overclaiming what the records supported.
Methodological Ground	PASS	The legacy review kept the package aligned with its named analysis library, data structure, or processing workflow.
Code Usability	PASS	The archived review preserved a usable code path with named scripts, expected inputs, and a recognizable output contract.

Core Capability83 / 100 — 8 Categories

Functional Suitability

Related legacy finding for variant-pathogenicity-predictor: Improve stress-case output rigor. Stress and boundary scenarios show weaker consistency

11 / 12

92%

Reliability

The archived deduction in reliability traces back to: Improve stress-case output rigor. Stress and boundary scenarios show weaker consistency

10 / 12

83%

Performance & Context

Performance context reached full score in the archived evaluation.

8 / 8

100%

Agent Usability

The packaged analysis path is understandable, though the archived score suggests slightly clearer routing would help.

13 / 16

81%

Human Usability

Related legacy finding for variant-pathogenicity-predictor: Stabilize executable path and fallback behavior. Some inputs only reached PARTIAL due to execution gaps or weak boundary handling

7 / 8

88%

Security

Security remained strong, though the archived review still left some room for clearer execution guardrails.

9 / 12

75%

Maintainability

Maintainability stayed solid, with only limited room to simplify scripts, dependencies, or packaging structure.

9 / 12

75%

Agent-Specific

Agent specific was softened by the legacy issue 'Stabilize executable path and fallback behavior'. Some inputs only reached PARTIAL due to execution gaps or weak boundary handling

16 / 20

80%

Core Capability Total83 / 100

Medical TaskExecution Average: 87.2 / 100 — Assertions: 18/20 Passed

100

Canonical

Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

4/4 ✓

Variant A

Use this skill for data analysis tasks that require explicit assumptions, bounded scope, and a reproducible output format

4/4 ✓

Edge

Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

4/4 ✓

Variant B

Packaged executable path(s): scripts/main.py

4/4 ✓

Stress

End-to-end case for Scope-focused workflow aligned to: Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

2/4 ⚠

100

Canonical✅ Pass

Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

The archived evaluation treated Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity as a clean in-scope run.

Basic 40/40|Specialized 60/60|Total 100/100

✅A1The variant-pathogenicity-predictor output structure covers required deliverable blocks

✅A2Script execution path is available (command exit code is 0)

✅A3The output stays within declared skill scope and target objective

✅A4Required research safety/boundary guidance is present without overclaims

Pass rate: 4 / 4

Variant A✅ Pass

Use this skill for data analysis tasks that require explicit assumptions, bounded scope, and a reproducible output format

The archived evaluation treated Use this skill for data analysis tasks that require explicit... as a clean in-scope run.

Basic 36/40|Specialized 56/60|Total 92/100

✅A1The variant-pathogenicity-predictor output structure covers required deliverable blocks

✅A2Script execution path is available (command exit code is 0)

✅A3The output stays within declared skill scope and target objective

✅A4Required research safety/boundary guidance is present without overclaims

Pass rate: 4 / 4

Edge✅ Pass

Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

The Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity path verified the packaged helper command without exposing a deeper execution issue.

Basic 36/40|Specialized 55/60|Total 91/100

✅A1The variant-pathogenicity-predictor output structure covers required deliverable blocks

✅A2Script execution path is available (command exit code is 0)

✅A3The output stays within declared skill scope and target objective

✅A4Required research safety/boundary guidance is present without overclaims

Pass rate: 4 / 4

Variant B✅ Pass

Packaged executable path(s): scripts/main.py

The Packaged executable path(s): scripts/main.py scenario completed within the documented Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity boundary.

Basic 36/40|Specialized 53/60|Total 89/100

✅A1The variant-pathogenicity-predictor output structure covers required deliverable blocks

✅A2Script execution path is available (command exit code is 0)

✅A3The output stays within declared skill scope and target objective

✅A4Required research safety/boundary guidance is present without overclaims

Pass rate: 4 / 4

Stress⚠️ Warning

End-to-end case for Scope-focused workflow aligned to: Integrate REVEL, CADD, PolyPhen scores to predict variant pathogenicity

The main issue in this stress run was: The output stays within declared skill scope and target objective.

Basic 25/40|Specialized 39/60|Total 64/100

✅A1The variant-pathogenicity-predictor output structure covers required deliverable blocks

✅A2Script execution path is available (command exit code is 0)

❌A3The output stays within declared skill scope and target objective

❌A4Required research safety/boundary guidance is present without overclaims

Pass rate: 2 / 4

Medical Task Total87.2 / 100

Key Strengths

Primary routing is Data Analysis with execution mode B
Static quality score is 83/100 and dynamic average is 87.2/100
Assertions and command execution outcomes are recorded per input for human review