Content
50%Reviews the quality of instructions and guidance provided to agents. Good implementation is clear, handles edge cases, and produces reliable results.
A well-structured, domain-rich workflow with clear phases and concrete tool guidance, but it is undermined by redundancy in the reasoning section, missing validation checkpoints, and reference files that are signaled but absent from the bundle. Actionability and progressive disclosure are the weakest dimensions.
Suggestions
Inline the core Phase 5 scoring breakdown (component thresholds mapping to the 0-10 / 5-tier scale) or provide CLASSIFICATION_GUIDE.md and ANALYSIS_PROCEDURES.md in a bundle directory so the deferred detail is actually reachable.
Remove the overlap between 'SV Pathogenicity Reasoning (Start Here)' and the per-phase sections, keeping the reasoning as a concise decision tree and letting the phases carry the procedural detail.
Add explicit validation checkpoints to the workflow (e.g., 'Confirm ClinGen HI/TS and gnomAD data were retrieved before computing the Phase 5 score') so the multi-step process has feedback loops.
| Dimension | Reasoning | Score |
|---|---|---|
Conciseness | Mostly efficient and assumes Claude's programming competence, but the 'SV Pathogenicity Reasoning (Start Here)' section substantially overlaps the per-phase descriptions and the KEY PRINCIPLES list, so it could be tightened. Not score 3 because of this redundancy; not score 1 because content is domain-specific guidance rather than padded basics. | 2 / 3 |
Actionability | Names specific tools (ClinGen_search_dosage_sensitivity, gnomad_search_variants) and concrete thresholds (HI score 3, pLI >= 0.9, >=1% BA1), but the detailed Phase 5 scoring breakdown and implementation are deferred to CLASSIFICATION_GUIDE.md / ANALYSIS_PROCEDURES.md, which are not present in the bundle, and no executable code is shown. Not score 3 because the core quantitative guidance is incomplete; not score 1 because tool names and decision rules are concrete. | 2 / 3 |
Workflow Clarity | A clear 7-phase sequence with per-phase goals is present, but there are no explicit validation checkpoints or feedback loops (e.g., verify ClinGen/gnomAD data was retrieved before scoring); 'Document this reasoning before computing' is implicit. Not score 3 because checkpoints are missing; not score 1 because the sequence is well-ordered. | 2 / 3 |
Progressive Disclosure | References are well-signaled and one level deep (CLASSIFICATION_GUIDE.md, ANALYSIS_PROCEDURES.md, REPORT_TEMPLATE.md, EXAMPLES.md), but no bundle directory exists and none of these referenced files are present, so the disclosed detail is unreachable. Not score 3 because referenced files are missing; not score 1 because the overview/reference structure is itself well organized. | 2 / 3 |
Total | 8 / 12 Passed |