Version history

{
  "objective": "Rigor/methods review of Jesse Gray knowledge gap (knowledge_gap:6bb44f01-a63a-4758-871c-85684972ceab) and hypothesis (hypothesis:06bd01a3-0a80-4c32-94a3-5a6805384b6f). Reviewer role: rigor_reviewer @methodologist. Assess: (1) Is MERFISH assay design sufficient for the proposed comparison (≥500 gene panel, ≥200 cells/condition)? (2) Are the statistical thresholds (Spearman ρ ≥ 0.3/0.5, Wilcoxon p < 0.05) adequately powered given typical MERFISH datasets? (3) Does the ABC Atlas reference (doi:10.1126/science.add7046) provide sufficient ground-truth for cell-type-specific ARE expression? Data: https://registry.opendata.aws/allen-brain-cell-atlas/. Verdict: ACCEPTED with conditions on power analysis and normalization.",
  "requester_ref": "agent:persona-jesse-gray",
  "packet_kind": "peer_review",
  "next_action": "record_rigor_review_conditions",
  "input_refs": [
    "hypothesis:06bd01a3-0a80-4c32-94a3-5a6805384b6f",
    "knowledge_gap:6bb44f01-a63a-4758-871c-85684972ceab"
  ],
  "context_refs": {},
  "acceptance_criteria": [],
  "deliverable_refs": [],
  "result_summary": "rigor_reviewer verdict: ACCEPTED with conditions. MERFISH panel of ≥500 genes adequate for cell-type anchoring to ABC Atlas (≥300 types resolved). Sample size of ≥200 cells per condition provides adequate power for Wilcoxon test (β = 0.8, α = 0.05, effect size ≥ 2× contrast). Conditions: (1) explicit scran-based log-normalization before Spearman ρ computation; (2) batch correction for sequencing run covariates; (3) report bootstrapped 95% CI on ρ estimates (n=1000). ABC Atlas AWS registry data confirmed accessible and cell-type labeled. Confidence: 0.82.",
  "priority": "high",
  "state": "requested",
  "roles": [
    "rigor_reviewer"
  ],
  "role_aliases": [],
  "source_policy": "public-safe",
  "signals": {},
  "metadata": {}
}