{
  "schema_version": "nexalel.review-dossier.v1",
  "intended_use": "exploratory_research",
  "review_status": "unreviewed",
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    "controls": {
      "status": "unavailable",
      "reason": "No validated negative/positive-control comparison in this profile; absence is not a pass."
    },
    "batch_group": {
      "status": "computed",
      "method": "Cramer's V (uncorrected); model-matrix rank for group + batch",
      "cramers_v": 1,
      "design_aliased": true,
      "contingency": [
        {
          "batch": "batch_a",
          "group": "comparison",
          "Freq": 0
        },
        {
          "batch": "batch_b",
          "group": "comparison",
          "Freq": 30
        },
        {
          "batch": "batch_a",
          "group": "reference",
          "Freq": 30
        },
        {
          "batch": "batch_b",
          "group": "reference",
          "Freq": 0
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      ],
      "interpretation": "Association diagnostic, not a causal batch correction or a significance test."
    },
    "depth_group": {
      "status": "computed",
      "method": "Kruskal-Wallis; unadjusted exploratory depth diagnostic",
      "statistic": 1.54229508196718,
      "p_value": 0.214276509861482,
      "unit": "reads"
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    "raw_retention": {
      "status": "unavailable",
      "reason": "Read tracking not supplied in the canonical provenance."
    },
    "findings": [
      {
        "code": "ASSAY_CONTROLS_UNASSESSED",
        "severity": "warning",
        "title": "ASSAY_CONTROLS_UNASSESSED",
        "message_safe": "Controles de ensayo no evaluados; este QC no certifica ausencia de contaminación."
      },
      {
        "code": "BATCH_GROUP_ALIASED",
        "severity": "warning",
        "title": "BATCH_GROUP_ALIASED",
        "message_safe": "Grupo y lote no son identificables por separado; no atribuir la separación al grupo."
      }
    ]
  },
  "diversity": {
    "method": "Observed Hill numbers on retained features: q0=S, q1=exp(Shannon), q2=1/sum(p^2)",
    "coverage_standardisation": {
      "status": "unavailable",
      "reason": "Observed Hill numbers and Good's coverage only; coverage-based estimation not implemented."
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus40",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus41",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus42",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus44",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus45",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus47",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus50",
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        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus52",
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      {
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      {
        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus58",
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        "n_estimable": 12,
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      {
        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus59",
        "label": "SimulatedGenus59",
        "n_specifications_total": 12,
        "n_estimable": 12,
        "eligibility_fraction": 1,
        "reference_estimate": -0.0557048265938921,
        "direction_retention_fraction": 1,
        "significance_fraction": 0,
        "estimate_min": -0.0557048265938921,
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      {
        "taxon_id": "Synthetic|SimulatedPhylum|unclassified|unclassified|SimulatedFamily|SimulatedGenus60",
        "label": "SimulatedGenus60",
        "n_specifications_total": 12,
        "n_estimable": 12,
        "eligibility_fraction": 1,
        "reference_estimate": -0.157913323692819,
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    ],
    "boundaries": ["Exploratory sensitivity only; not a full specification-curve inferential test or replication.", "Changing prevalence changes the CLR reference and therefore the estimand; coefficients are not ANCOM-BC2 LFCs.", "Direction and significance fractions use estimable specifications only; inspect eligibility_fraction and the full grid.", "Specifications are correlated; fractions are not probabilities of truth or cross-specification FDR control.", "No outliers removed, no model or taxon selected by significance, no coverage standardisation."]
  },
  "network_significance": {
    "status": "not_estimated",
    "reason": "SparCC reports bootstrap sign-and-magnitude agreement, not p-values or FDR."
  }
}