Data Analysis

singlecell-portal

Programmatically query public single-cell study metadata from the Broad Institute Single Cell Portal REST API when you need to search and filter datasets by organism, tissue, disease, or cell type without an API key.

89100Total Score

Core Capability

84 / 100

Functional Suitability

10 / 12

Reliability

9 / 12

Performance & Context

8 / 8

Agent Usability

13 / 16

Human Usability

8 / 8

Security

10 / 12

Maintainability

10 / 12

Agent-Specific

16 / 20

Medical Task

20 / 20 Passed

96You need to discover relevant public single-cell studies by filtering on organism (e.g., human/mouse) and tissue (e.g., lung/brain)

4/4

92You want to quickly retrieve study-level metadata (e.g., study name, accession, cell counts) for downstream curation or reporting

4/4

90Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

4/4

90No API key required (public endpoints)

4/4

90End-to-end case for Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

4/4

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	The archived review kept this package within Programmatically query public single-cell study metadata from the Broad Institute Single..., not freeform inference detached from source data.
Methodological Ground	PASS	Methodological grounding was preserved through the documented inputs, transformations, and expected artifacts.
Code Usability	PASS	Code usability passed because the package still exposed a reviewable execution surface for its documented workflow.

Core Capability84 / 100 — 8 Categories

Functional Suitability

Related legacy finding for singlecell-portal: Improve stress-case output rigor. Stress and boundary scenarios show weaker consistency

10 / 12

83%

Reliability

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

9 / 12

75%

Performance & Context

No point loss was recorded for performance context in the legacy audit.

8 / 8

100%

Agent Usability

Agent usability was strong, but the workflow could surface its entry conditions a little more directly.

13 / 16

81%

Human Usability

Human usability reached full score in the archived evaluation.

8 / 8

100%

Security

The packaged workflow stayed safe overall, with only a small remaining deduction around boundary signaling.

10 / 12

83%

Maintainability

The archived review treated the package as maintainable, while still preserving some room for cleanup.

10 / 12

83%

Agent-Specific

Agent specific was softened by the legacy issue 'Improve stress-case output rigor'. Stress and boundary scenarios show weaker consistency

16 / 20

80%

Core Capability Total84 / 100

Medical TaskExecution Average: 91.6 / 100 — Assertions: 20/20 Passed

Canonical

You need to discover relevant public single-cell studies by filtering on organism (e.g., human/mouse) and tissue (e.g., lung/brain)

4/4 ✓

Variant A

You want to quickly retrieve study-level metadata (e.g., study name, accession, cell counts) for downstream curation or reporting

4/4 ✓

Edge

Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

4/4 ✓

Variant B

No API key required (public endpoints)

4/4 ✓

Stress

End-to-end case for Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

4/4 ✓

Canonical✅ Pass

You need to discover relevant public single-cell studies by filtering on organism (e.g., human/mouse) and tissue (e.g., lung/brain)

The archived run treated You need to discover relevant public single-cell studies by... as a bounded analysis workflow rather than a purely narrative instruction path.

Basic 36/40|Specialized 60/60|Total 96/100

✅A1The singlecell-portal output structure matches the documented deliverable

✅A2The instruction path remains actionable for the documented case

✅A3The output stays fully within the documented skill boundary

✅A4The response quality is acceptable for the documented path

Pass rate: 4 / 4

Variant A✅ Pass

You want to quickly retrieve study-level metadata (e.g., study name, accession, cell counts) for downstream curation or reporting

The archived run treated You want to quickly retrieve study-level metadata (e.g., study... as a bounded extraction workflow, keeping attention on source fields, fallback logic, and output shape.

Basic 34/40|Specialized 58/60|Total 92/100

✅A1The singlecell-portal output structure matches the documented deliverable

✅A2The instruction path remains actionable for the documented case

✅A3The output stays fully within the documented skill boundary

✅A4The response quality is acceptable for the documented path

Pass rate: 4 / 4

Edge✅ Pass

Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

The archived run treated Direct REST access to the official Single Cell Portal API... as a bounded analysis workflow rather than a purely narrative instruction path.

Basic 33/40|Specialized 57/60|Total 90/100

✅A1The singlecell-portal output structure matches the documented deliverable

✅A2The instruction path remains actionable for the documented case

✅A3The output stays fully within the documented skill boundary

✅A4The response quality is acceptable for the documented path

Pass rate: 4 / 4

Variant B✅ Pass

No API key required (public endpoints)

No API key required (public endpoints) remained tied to the documented analysis contract even when the preserved evidence centered on instructions instead of a full rerun.

Basic 32/40|Specialized 58/60|Total 90/100

✅A1The singlecell-portal output structure matches the documented deliverable

✅A2The instruction path remains actionable for the documented case

✅A3The output stays fully within the documented skill boundary

✅A4The response quality is acceptable for the documented path

Pass rate: 4 / 4

Stress✅ Pass

End-to-end case for Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)

End-to-end case for Direct REST access to the official Single Cell... remained tied to the documented analysis contract even when the preserved evidence centered on instructions instead of a full rerun.

Basic 29/40|Specialized 60/60|Total 90/100

✅A1The singlecell-portal output structure matches the documented deliverable

✅A2The instruction path remains actionable for the documented case

✅A3The output stays fully within the documented skill boundary

✅A4The response quality is acceptable for the documented path

Pass rate: 4 / 4

Medical Task Total91.6 / 100

Key Strengths

Primary routing is Data Analysis with execution mode B
Static quality score is 84/100 and dynamic average is 78.6/100
Assertions and command execution outcomes are recorded per input for human review
Execution verification summary: Script verification 1/1; adjustment=5. query.py: OK