{
 "exported_at": "2026-10-30T03:13:33.395873+00:00",
 "exported_by": {
  "app": "quantetta-a web",
  "code": {
   "git_commit": "",
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 "recording_short": "M13Rec001",
 "header": {
  "short": "M13Rec001",
  "label": "Mouse heart, spiral wave and optogenetic termination",
  "facts": "64 \u00d7 55 px, 9,267 frames, 1 kHz, 133 \u00b5m/px, deposit checks: negative values, nan mask all frames, temporal smoothing, spatial smoothing",
  "run_short": "e21e4827",
  "run_when": "2026-10-27 23:37 UTC",
  "params_version": 3,
  "commit": "905d5be",
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  "workers": 9,
  "sig_short": "a609cf0a",
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  "protocol_name": "Mouse whole heart optical mapping (Luther lab)"
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 "parameters": "% Mouse whole heart optical mapping (Luther lab), v3, read-only\n% set by developer (not a domain scientist); provisional, REVIEW_NEEDED 16\nbaseline_frames  = 901;     % >= 2 x slowest cycle (415, MAP): ok\npad_frames       = 500;     % each side, outside the window\nspatial_sigma    = 1.0;     % px, Gaussian, phase only\nspatial_truncate = 4.0;     % kernel radius, sigma\nlowpass          = [];      % none\npolarity         = -1;      % measured, skew of dV/dt\nrotor_threshold  = 0.9;     % turns, |winding| per plaquette\nrotor_erode_px   = 3;       % px from tissue edge ignored\nlink_px          = 4.0;     % tracking, max step per frame\nmax_gap          = 5;       % frames a track may vanish\nmin_cycles       = 1.0;     % own rotations, min_frames = 52\npair_dist_px     = 3.0;     % opposite-charge pairing\npaired_frac      = 0.5;     % max paired fraction of a track\nrender_step      = 4;       % movie only",
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    "unit": "Hz",
    "scope": "one optical mapping recording in the same study (spiral wave before and during illumination); not a population range",
    "metric": "dominant_freq_hz",
    "source": {
     "ref": "10.1371/journal.pcbi.1011660",
     "quotes": [
      "rotational frequency of \u2248 20 Hz before illumination",
      "the frequency of the arrhythmia decreases to \u2248 18\\.75 Hz"
     ],
     "passages": [
      " is shown in Fig 3B. It shows that the arrhythmia consists of a single spiral wave with a stationary core dynamic and a rotational frequency of \u2248 20 Hz before illumination. During a single global optical pulse with a PL of 5000 ms and an LI of 3.21 \u03bcW/mm2, the frequency of the arrhythmia de",
      "ncy of \u2248 20 Hz before illumination. During a single global optical pulse with a PL of 5000 ms and an LI of 3.21 \u03bcW/mm2, the frequency of the arrhythmia decreases to \u2248 18.75 Hz. It is important to note that the frequency reverses its original value of \u2248 20 Hz when the light is turned off. Fig 3C"
     ]
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  "run_id": "e21e4827-a6ed-4197-9e87-98959ab51755",
  "status": "provisional",
  "verdict": {
   "send_back": false,
   "critic_notes": "Reportable as provisional descriptive findings: singularity presence during illuminated arrhythmia is stable, persistent-rotor presence during illuminated arrhythmia and absence in light_off and illuminated_after_termination are stable, and stable descriptive values with no cited ranges include light_off persistent rotors 0, light_off persistent_rotor_count_max 0, light_off dominant_freq_hz 2.375 Hz, illuminated_after_termination persistent rotors 0, illuminated_after_termination persistent_rotor_count_max 0, and illuminated_after_termination dominant_freq_hz 2.214 Hz; not reportable as single values are light_off.singularity_frames_frac 0.0029023746701846965\u20130.02955145118733509, illuminated_arrhythmia.persistent_rotors 4.0\u201315.0, illuminated_arrhythmia.persistent_rotor_count_max 1.0\u20132.0, illuminated_arrhythmia.dominant_freq_hz 15.356\u201319.85 Hz, illuminated_after_termination.singularity_frames_frac 0.0005534034311012728\u20130.014941892639734366, and persistent_rotor_tracks 4.0\u201315.0; the persistent-rotor threshold result agrees for 52 frames and for the paper-context 50 frames derived from the cited 20.0 Hz rotation period, with context from DOI 10.1371/journal.pcbi.1011660, while review is still needed for the processed-data label, frame 3170 event interpretation, illumination/baseline artifacts, and provisional thresholds; the cited ranges, the stability threshold, and the criteria are provisional.",
   "review_items": [
    {
     "topic": "unstable:light_off.singularity_frames_frac",
     "detail": "Range across settings is 0.0029023746701846965\u20130.02955145118733509, so this fraction should not be reported as a single value.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "unstable:illuminated_arrhythmia.persistent_rotors",
     "detail": "Range across filters and trackers is 4.0\u201315.0; report robust presence only, not the exact count.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "unstable:illuminated_arrhythmia.persistent_rotor_count_max",
     "detail": "Range across settings is 1.0\u20132.0, so the maximum concurrent count is not a stable single value.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "unstable:illuminated_arrhythmia.dominant_freq_hz",
     "detail": "Range across baseline windows is 15.356\u201319.85 Hz; although DOI 10.1371/journal.pcbi.1011660 gives context of approximately 20 Hz and approximately 18.75 Hz for the study, this metric is not reportable as a single value here.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "unstable:illuminated_after_termination.singularity_frames_frac",
     "detail": "Range across settings is 0.0005534034311012728\u20130.014941892639734366, so this fraction should not be reported as a single value.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "unstable:persistent_rotor_tracks",
     "detail": "Range across filters and trackers is 4.0\u201315.0, so the exact track count is unstable and not reportable.",
     "severity": "warn",
     "reviewer_type": "domain scientist / analysis lead"
    },
    {
     "topic": "Pre-deposit processing / raw-data label",
     "detail": "The README labels M13Rec001 as raw experimental data, but notebook documentation and prior-processing flags indicate masking, spatial smoothing, temporal smoothing, and normalization; do not treat this as raw camera photon-count data.",
     "severity": "warn",
     "reviewer_type": "data curator / imaging analyst"
    },
    {
     "topic": "Event interpretation at frame 3170",
     "detail": "Frame 3170 is an image baseline_step only; illumination began before frame 0 and ended at frame 4977, so frame 3170 should not be treated as light onset, and the spiral-termination label remains provisional.",
     "severity": "warn",
     "reviewer_type": "domain scientist"
    },
    {
     "topic": "Baseline and illumination artifact",
     "detail": "The publication reports blue-light crosstalk and re-normalization, and this recording has a large slow baseline range and a baseline step; amplitude or baseline-dependent analyses need artifact-aware review.",
     "severity": "warn",
     "reviewer_type": "optical mapping expert"
    },
    {
     "topic": "Provisional tool thresholds",
     "detail": "Event detection, processing flags, SNR, rhythm, and reference-rate thresholds are provisional and not yet reviewed by a domain scientist.",
     "severity": "info",
     "reviewer_type": "domain scientist / methods reviewer"
    }
   ],
   "tracker_note": "Strict, default, and loose tracking all satisfy the provisional persistent-rotor rule: light_off 0, illuminated_arrhythmia 5/13/15, and illuminated_after_termination 0. The rule verdict agrees across trackers, while the exact illuminated-arrhythmia count is tracker-sensitive and therefore handled as unstable rather than false.",
   "physiology_ok": null,
   "metric_judgments": [
    {
     "note": "This fraction is sensitivity-dependent across settings (range 0.0029023746701846965\u20130.02955145118733509), so it should not be reported as a single quantitative value; treat only the qualitative absence of persistent rotors in this segment as robust.",
     "metric": "light_off.singularity_frames_frac",
     "status": "unstable_not_reportable"
    },
    {
     "note": "The stable count of 0 has no cited physiological reference range in the supplied context, so it can be reported only descriptively as no persistent rotors detected in the light-off segment under these provisional criteria.",
     "metric": "light_off.persistent_rotors",
     "status": "no_cited_range"
    },
    {
     "note": "The stable maximum concurrent persistent-rotor count of 0 has no cited reference range, so it can be reported descriptively but not as physiologically validated.",
     "metric": "light_off.persistent_rotor_count_max",
     "status": "no_cited_range"
    },
    {
     "note": "The stable 2.375 Hz dominant frequency has no cited range for this post-light-off segment, so it can be reported descriptively only.",
     "metric": "light_off.dominant_freq_hz",
     "status": "no_cited_range"
    },
    {
     "note": "The singularity-frame fraction is stable across the filter grid, but no cited physiological range was supplied; report it descriptively as a robust analysis feature rather than as range-validated physiology.",
     "metric": "illuminated_arrhythmia.singularity_frames_frac",
     "status": "no_cited_range"
    },
    {
     "note": "The rotor count varies across filters and trackers (range 4.0\u201315.0), so the exact count is unstable and not reportable; only the presence of persistent rotors is robust under the provisional rule.",
     "metric": "illuminated_arrhythmia.persistent_rotors",
     "status": "unstable_not_reportable"
    },
    {
     "note": "The maximum concurrent persistent-rotor count varies across settings (range 1.0\u20132.0), so it should not be reported as a single value.",
     "metric": "illuminated_arrhythmia.persistent_rotor_count_max",
     "status": "unstable_not_reportable"
    },
    {
     "note": "The dominant frequency varies with baseline window (range 15.356\u201319.85 Hz), so it is unstable and not reportable as a single value; the cited context for this study describes a mouse spiral-wave rotation frequency of approximately 20 Hz before illumination and approximately 18.75 Hz during illumination (DOI 10.1371/journal.pcbi.1011660), but this check cannot be used for range validation while unstable.",
     "metric": "illuminated_arrhythmia.dominant_freq_hz",
     "status": "unstable_not_reportable"
    },
    {
     "note": "This fraction is sensitivity-dependent across settings (range 0.0005534034311012728\u20130.014941892639734366), so it should not be reported as a single quantitative value.",
     "metric": "illuminated_after_termination.singularity_frames_frac",
     "status": "unstable_not_reportable"
    },
    {
     "note": "The stable count of 0 has no cited physiological reference range, so it can be reported descriptively as no persistent rotors detected after termination under the provisional criteria.",
     "metric": "illuminated_after_termination.persistent_rotors",
     "status": "no_cited_range"
    },
    {
     "note": "The stable maximum concurrent persistent-rotor count of 0 has no cited reference range, so it can be reported descriptively but not as physiologically validated.",
     "metric": "illuminated_after_termination.persistent_rotor_count_max",
     "status": "no_cited_range"
    },
    {
     "note": "The stable 2.214 Hz dominant frequency has no cited range for the after-termination segment, so it can be reported descriptively only.",
     "metric": "illuminated_after_termination.dominant_freq_hz",
     "status": "no_cited_range"
    },
    {
     "note": "The total persistent-rotor track count varies across filters and trackers (range 4.0\u201315.0), so the exact track count is unstable and not reportable; the robust finding is presence during illuminated arrhythmia and absence in the other segments.",
     "metric": "persistent_rotor_tracks",
     "status": "unstable_not_reportable"
    }
   ],
   "send_back_reason": null,
   "persistence_threshold_note": "The persistent-rotor rule holds across filters and trackers using both the measured-cycle threshold of 52 frames and the paper-cited 20.0 Hz rotation-period threshold of 50 frames; the two threshold variants agree."
  },
  "passages": {
   "mouse_spiral_rotation_period": {
    "ref": "10.1371/journal.pcbi.1011660",
    "note": "At 1000 frames/s, 20 Hz is a 50-frame rotation; the illuminated value of 18.75 Hz would be 53 frames.",
    "quotes": [
     "rotational frequency of \u2248 20 Hz before illumination"
    ],
    "status": "provisional",
    "passages": [
     " is shown in Fig 3B. It shows that the arrhythmia consists of a single spiral wave with a stationary core dynamic and a rotational frequency of \u2248 20 Hz before illumination. During a single global optical pulse with a PL of 5000 ms and an LI of 3.21 \u03bcW/mm2, the frequency of the arrhythmia de"
    ],
    "applies_to": {
     "species": "mouse"
    },
    "rotation_hz": 20.0
   }
  },
  "trackers": {
   "note": "disagreement is reported as a review item, not folded into the pass/fail",
   "agree": true,
   "trackers": [
    {
     "link_px": 2.0,
     "max_gap": 1,
     "tracker": "strict",
     "is_run_setting": false,
     "persistent_rotor_rule": "holds (provisional)",
     "persistent_rotors_by_segment": {
      "light_off": 0,
      "illuminated_arrhythmia": 5,
      "illuminated_after_termination": 0
     }
    },
    {
     "link_px": 4.0,
     "max_gap": 5,
     "tracker": "default",
     "is_run_setting": true,
     "persistent_rotor_rule": "holds (provisional)",
     "persistent_rotors_by_segment": {
      "light_off": 0,
      "illuminated_arrhythmia": 13,
      "illuminated_after_termination": 0
     }
    },
    {
     "link_px": 6.0,
     "max_gap": 10,
     "tracker": "loose",
     "is_run_setting": false,
     "persistent_rotor_rule": "holds (provisional)",
     "persistent_rotors_by_segment": {
      "light_off": 0,
      "illuminated_arrhythmia": 15,
      "illuminated_after_termination": 0
     }
    }
   ]
  },
  "stability": {
   "persistent_rotor_tracks": {
    "max": 15.0,
    "min": 4.0,
    "median": 12.0,
    "stable": false,
    "settings": 15,
    "spread_frac": 0.917,
    "values_grid": [
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     5,
     4,
     12,
     11,
     12,
     13,
     13,
     15,
     12,
     13,
     12
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     5,
     13,
     15
    ]
   },
   "light_off.dominant_freq_hz": {
    "max": 2.375,
    "min": 2.375,
    "median": 2.375,
    "stable": true,
    "settings": 4,
    "spread_frac": 0.0,
    "varied_over": "baseline windows",
    "values_by_baseline": {
     "678": 2.375,
     "901": 2.375,
     "1356": 2.375,
     "2712": 2.375
    }
   },
   "light_off.persistent_rotors": {
    "max": 0.0,
    "min": 0.0,
    "median": 0.0,
    "stable": true,
    "settings": 15,
    "spread_frac": 0.0,
    "values_grid": [
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     0,
     0,
     0,
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     0,
     0,
     0,
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     0,
     0,
     0
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     0,
     0,
     0
    ]
   },
   "light_off.singularity_frames_frac": {
    "max": 0.02955145118733509,
    "min": 0.0029023746701846965,
    "median": 0.008575197889182058,
    "stable": false,
    "settings": 12,
    "spread_frac": 3.108,
    "values_grid": [
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     0.02955145118733509,
     0.02691292875989446,
     0.008707124010554089,
     0.008179419525065963,
     0.00712401055408971,
     0.0036939313984168864,
     0.0036939313984168864,
     0.0029023746701846965,
     0.013192612137203167,
     0.012137203166226913,
     0.008443271767810026
    ],
    "varied_over": "filter grid"
   },
   "light_off.persistent_rotor_present": {
    "stable": true,
    "values_grid": [
     false,
     false,
     false,
     false,
     false,
     false,
     false,
     false,
     false,
     false,
     false,
     false
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     false,
     false,
     false
    ],
    "stable_across_filters": true,
    "stable_across_trackers": true
   },
   "light_off.persistent_rotor_count_max": {
    "max": 0.0,
    "min": 0.0,
    "median": 0.0,
    "stable": true,
    "settings": 15,
    "spread_frac": 0.0,
    "values_grid": [
     0,
     0,
     0,
     0,
     0,
     0,
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     0,
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     0,
     0,
     0
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     0,
     0,
     0
    ]
   },
   "illuminated_arrhythmia.dominant_freq_hz": {
    "max": 19.85,
    "min": 15.356,
    "median": 17.2285,
    "stable": false,
    "settings": 4,
    "spread_frac": 0.261,
    "varied_over": "baseline windows",
    "values_by_baseline": {
     "678": 19.85,
     "901": 19.101,
     "1356": 15.356,
     "2712": 15.356
    }
   },
   "illuminated_arrhythmia.persistent_rotors": {
    "max": 15.0,
    "min": 4.0,
    "median": 12.0,
    "stable": false,
    "settings": 15,
    "spread_frac": 0.917,
    "values_grid": [
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     12,
     11,
     12,
     13,
     13,
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     13,
     12
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     5,
     13,
     15
    ]
   },
   "illuminated_after_termination.dominant_freq_hz": {
    "max": 2.214,
    "min": 2.214,
    "median": 2.214,
    "stable": true,
    "settings": 4,
    "spread_frac": 0.0,
    "varied_over": "baseline windows",
    "values_by_baseline": {
     "678": 2.214,
     "901": 2.214,
     "1356": 2.214,
     "2712": 2.214
    }
   },
   "illuminated_arrhythmia.singularity_frames_frac": {
    "max": 0.48801498127340825,
    "min": 0.3816479400749064,
    "median": 0.47191011235955055,
    "stable": true,
    "settings": 12,
    "spread_frac": 0.225,
    "values_grid": [
     0.40898876404494383,
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     0.4797752808988764,
     0.4756554307116105,
     0.45767790262172287,
     0.48801498127340825,
     0.4846441947565543,
     0.4681647940074906,
     0.4842696629213483,
     0.47902621722846445,
     0.4606741573033708
    ],
    "varied_over": "filter grid"
   },
   "illuminated_after_termination.persistent_rotors": {
    "max": 0.0,
    "min": 0.0,
    "median": 0.0,
    "stable": true,
    "settings": 15,
    "spread_frac": 0.0,
    "values_grid": [
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    "varied_over": "filter grid + trackers",
    "values_trackers": [
     0,
     0,
     0
    ]
   },
   "illuminated_arrhythmia.persistent_rotor_present": {
    "stable": true,
    "values_grid": [
     true,
     true,
     true,
     true,
     true,
     true,
     true,
     true,
     true,
     true,
     true,
     true
    ],
    "varied_over": "filter grid + trackers",
    "values_trackers": [
     true,
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     true
    ],
    "stable_across_filters": true,
    "stable_across_trackers": true
   },
   "illuminated_arrhythmia.persistent_rotor_count_max": {
    "max": 2.0,
    "min": 1.0,
    "median": 2.0,
    "stable": false,
    "settings": 15,
    "spread_frac": 0.5,
    "values_grid": [
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    "varied_over": "filter grid + trackers",
    "values_trackers": [
     1,
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     2
    ]
   },
   "illuminated_after_termination.singularity_frames_frac": {
    "max": 0.014941892639734366,
    "min": 0.0005534034311012728,
    "median": 0.005534034311012729,
    "stable": false,
    "settings": 12,
    "spread_frac": 2.6,
    "values_grid": [
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    "varied_over": "filter grid"
   },
   "illuminated_after_termination.persistent_rotor_present": {
    "stable": true,
    "values_grid": [
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    "varied_over": "filter grid + trackers",
    "values_trackers": [
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    "stable_across_filters": true,
    "stable_across_trackers": true
   },
   "illuminated_after_termination.persistent_rotor_count_max": {
    "max": 0.0,
    "min": 0.0,
    "median": 0.0,
    "stable": true,
    "settings": 15,
    "spread_frac": 0.0,
    "values_grid": [
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    "varied_over": "filter grid + trackers",
    "values_trackers": [
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   }
  },
  "reviewed_at": "2026-10-27T23:43:04.090284+00:00",
  "recording_id": "55cb4aa3-6502-45a6-a14c-85cb676fe8c3",
  "signature_id": "a609cf0a-fd5e-4922-b909-9f81812f9726",
  "prompt_version": "critic-v1",
  "criteria_status": {
   "note": null,
   "rules": [
    {
     "id": "physiology_reference_rates",
     "expert": "cardiac electrophysiologist per species",
     "status": "provisional",
     "values": {
      "ranges": [
       "mouse_spiral_rotation_hz"
      ],
      "tolerance_frac": 0.25,
      "segment_rhythm_rule": "expected persistent rotors 'present' -> spiral arrhythmia"
     },
     "decision": null,
     "location": "worker/voltage/physiology.py (RANGES, TOLERANCE_FRAC)",
     "reviewed": false,
     "reviewer": null,
     "description": "Cited physiological ranges (single-study values widened by a 25% tolerance), applied to segments by their expected rhythm; used by the critic and for frame-rate sanity checks",
     "reviewed_at": null
    },
    {
     "id": "stability_rule",
     "expert": "biostatistician + optical mapping analyst",
     "status": "provisional",
     "values": {
      "unstable": [
       "light_off.singularity_frames_frac",
       "illuminated_arrhythmia.persistent_rotors",
       "illuminated_arrhythmia.persistent_rotor_count_max",
       "illuminated_arrhythmia.dominant_freq_hz",
       "illuminated_after_termination.singularity_frames_frac",
       "persistent_rotor_tracks"
      ],
      "stable_frac": 0.25
     },
     "decision": null,
     "location": "worker/agents/critic.py (STABLE_FRAC, stability)",
     "reviewed": false,
     "reviewer": null,
     "description": "A metric is reportable only if its spread across all sensitivity settings is <= 25% of its median (zero spread when all values are 0); otherwise 'unstable, not reportable'",
     "reviewed_at": null
    },
    {
     "id": "persistence_threshold_variants",
     "expert": "computational cardiac electrophysiologist (phase mapping)",
     "status": "provisional",
     "values": {
      "measured_cycle": 52,
      "paper_rotation": 50
     },
     "decision": null,
     "location": "worker/agents/critic.py (persistence_variants)",
     "reviewed": false,
     "reviewer": null,
     "description": "The persistent-rotor rule is run at two lifetimes, one measured cycle of the fastest segment and the paper's cited rotation period; both verdicts stored, disagreement flagged",
     "reviewed_at": null
    },
    {
     "id": "persistent_rotor_criterion",
     "expert": "cardiac electrophysiologist",
     "status": "provisional",
     "values": {
      "max_absent": 0,
      "min_present": 1
     },
     "decision": null,
     "location": "worker/voltage/sensitivity.py (MIN_ROTORS_PRESENT, MAX_ROTORS_ABSENT)",
     "reviewed": false,
     "reviewer": null,
     "description": "Persistent-rotor finding holds if every 'present' segment has >= 1 persistent rotor and every 'absent' segment has none, at every setting",
     "reviewed_at": null
    },
    {
     "id": "sensitivity_grid",
     "expert": "optical mapping analyst",
     "status": "provisional",
     "values": {
      "spatial_sigma": {
       "light": 0.5,
       "default": 1.0,
       "heavier": 2.0
      },
      "baseline_frames": {
       "run": 901,
       "3x_cycle": 1356,
       "6x_cycle": 2712,
       "1.5x_cycle": 678
      },
      "baseline_scaling": {
       "multiples": {
        "3x_cycle": 3.0,
        "6x_cycle": 6.0,
        "1.5x_cycle": 1.5
       },
       "reference_segment": "illuminated_after_termination",
       "segment_cycles_frames": {
        "light_off": 421,
        "illuminated_arrhythmia": 52,
        "illuminated_after_termination": 452
       },
       "reference_cycle_frames": 452,
       "window_over_cycle_per_segment": {
        "run": {
         "light_off": 2.14,
         "illuminated_arrhythmia": 17.33,
         "illuminated_after_termination": 1.99
        },
        "3x_cycle": {
         "light_off": 3.22,
         "illuminated_arrhythmia": 26.08,
         "illuminated_after_termination": 3.0
        },
        "6x_cycle": {
         "light_off": 6.44,
         "illuminated_arrhythmia": 52.15,
         "illuminated_after_termination": 6.0
        },
        "1.5x_cycle": {
         "light_off": 1.61,
         "illuminated_arrhythmia": 13.04,
         "illuminated_after_termination": 1.5
        }
       }
      },
      "tracker(link_px, max_gap)": {
       "loose": [
        6.0,
        10
       ],
       "strict": [
        2.0,
        1
       ],
       "default": [
        4.0,
        5
       ]
      }
     },
     "decision": null,
     "location": "worker/voltage/sensitivity.py (SIGMAS, BASELINE_MULTIPLES, baseline_levels)",
     "reviewed": false,
     "reviewer": null,
     "description": "Filter levels tested: spatial sigma and baseline window values",
     "reviewed_at": null
    }
   ],
   "status": "provisional",
   "all_reviewed": false,
   "superseded_by_run": null
  },
  "persistence_variants": {
   "agree": true,
   "measured_cycle": {
    "basis": "one dominant cycle of the fastest segment at the run setting",
    "applicable": true,
    "min_frames": 52,
    "segment_counts_grid": {
     "light_off": [
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      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0
     ],
     "illuminated_arrhythmia": [
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      5,
      4,
      12,
      11,
      12,
      13,
      13,
      15,
      12,
      13,
      12
     ],
     "illuminated_after_termination": [
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      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0
     ]
    },
    "holds_across_filters": true,
    "label_across_filters": "holds (provisional)",
    "holds_across_trackers": true,
    "label_across_trackers": "holds (provisional)",
    "segment_lifetimes_run": {
     "light_off": [],
     "illuminated_arrhythmia": [
      40,
      34,
      57,
      106,
      37,
      57,
      41,
      34,
      62,
      21,
      37,
      32,
      23
     ],
     "illuminated_after_termination": []
    }
   },
   "paper_rotation": {
    "ref": "10.1371/journal.pcbi.1011660",
    "basis": "1000 frames/s / 20 Hz, cited",
    "passage": " is shown in Fig 3B. It shows that the arrhythmia consists of a single spiral wave with a stationary core dynamic and a rotational frequency of \u2248 20 Hz before illumination. During a single global optical pulse with a PL of 5000 ms and an LI of 3.21 \u03bcW/mm2, the frequency of the arrhythmia de",
    "applicable": true,
    "min_frames": 50,
    "rotation_hz": 20.0,
    "segment_counts_grid": {
     "light_off": [
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0
     ],
     "illuminated_arrhythmia": [
      5,
      5,
      4,
      12,
      11,
      12,
      13,
      13,
      15,
      12,
      13,
      12
     ],
     "illuminated_after_termination": [
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0,
      0
     ]
    },
    "holds_across_filters": true,
    "label_across_filters": "holds (provisional)",
    "holds_across_trackers": true,
    "label_across_trackers": "holds (provisional)",
    "segment_lifetimes_run": {
     "light_off": [],
     "illuminated_arrhythmia": [
      40,
      34,
      57,
      106,
      37,
      57,
      41,
      34,
      62,
      21,
      37,
      32,
      23
     ],
     "illuminated_after_termination": []
    }
   }
  },
  "required_review_topics": [
   "unstable:light_off.singularity_frames_frac",
   "unstable:illuminated_arrhythmia.persistent_rotors",
   "unstable:illuminated_arrhythmia.persistent_rotor_count_max",
   "unstable:illuminated_arrhythmia.dominant_freq_hz",
   "unstable:illuminated_after_termination.singularity_frames_frac",
   "unstable:persistent_rotor_tracks"
  ]
 },
 "criteria": [
  {
   "criterion": "Singularities present where the design expects them, absent elsewhere",
   "rule": "each 'present' segment: frac >= 0.1 and >= 2.0 x max frac over 'absent' segments, at every setting",
   "result": "holds at 12 filter settings",
   "superseded": false,
   "provisional": true
  },
  {
   "criterion": "Persistent rotors present where the design expects them, absent elsewhere",
   "rule": "each 'present' segment: count >= 1; each 'absent' segment: count <= 0, at every setting",
   "result": "holds at 12 filter settings and 3 trackers",
   "superseded": false,
   "provisional": true
  },
  {
   "criterion": "Persistence threshold, paper context",
   "rule": "lifetime \u2265 52 frames (measured cycle) and \u2265 50 frames (cited 20 Hz)",
   "result": "agree",
   "provisional": true
  }
 ],
 "report": {
  "methods": "Recording Mouse heart, spiral wave and optogenetic termination (M13Rec001) (doi:10.5281/zenodo.10228296; 64x55 px, 9267 frames, 1000 Hz) was analysed over frames 500-8767. Deposit shows signs of prior processing (provisional): negative values, non integer, nan mask all frames, temporal smoothing, spatial smoothing. Each pixel was baseline-corrected by subtracting a 901-frame centered moving average; NaN pixels were set to zero. Dye polarity (inverted) was taken from the sign of the median per-pixel skew of dV/dt. For phase only, each frame was spatially filtered with a Gaussian (sigma 1.0 px, truncated at 4.0 sigma); no temporal low-pass was applied. Phase was the angle of the Hilbert transform with 500 frames of padding on each side. Phase singularities were plaquettes with |winding| > 0.9 turns at least 3 px inside the tissue edge; they were tracked across frames (same charge, <= 4.0 px per frame, gaps <= 5 frames), and a persistent rotor was a track lasting >= 52 frames (1 cycle(s) of the fastest segment) within 3.0 px of an opposite-charge singularity in no more than 50% of its frames. Acquisition log (LED trigger channel, provisional interpretation): illumination on over frames 500-4977 of the analysed frames 500-8767. Segments (provisional, project lead (not a domain scientist), following the paper's design): illumination with arrhythmia frames 500-3170 (expected persistent rotors: present); illumination after termination frames 3170-4977 (expected persistent rotors: absent); light off frames 4977-8767 (expected persistent rotors: absent). Sensitivity: baseline 2712, 1356, 678, 901 frames x sigma 0.5, 1.0, 2.0 px, and tracker variants. singularities: across filters holds (provisional). persistent rotors: across filters holds (provisional); across trackers holds (provisional). persistent rotors fraction superseded: across filters does not hold (provisional); across trackers does not hold (provisional). All thresholds and criteria are provisional pending review by a domain scientist.",
  "rules": [
   {
    "id": "protocol_parameter_set",
    "description": "Each protocol's fixed, versioned analysis parameters (version 1 = developer defaults); no run or agent may deviate",
    "expert": "optical mapping analyst",
    "status": "provisional",
    "location": "worker/voltage/protocol_params.py (developer_defaults, set_params)",
    "values": {
     "set_by": "developer (not a domain scientist)",
     "protocol": "Mouse whole heart optical mapping (Luther lab)",
     "protocol_id": "f65d786f-f194-4be2-88b8-10d3dd25d674",
     "params_version": 3
    }
   },
   {
    "id": "baseline_window_rule",
    "description": "A run proceeds only if the protocol's baseline window is >= 2x the slowest segment's cycle, the cycle from the MAP channel when a DAQ log exists, else from per-pixel dominant frequency on linearly detrended pixels; otherwise the run is held by code",
    "expert": "optical mapping analyst",
    "status": "provisional",
    "location": "worker/voltage/baseline_rule.py (FACTOR, evaluate)",
    "values": {
     "ok": true,
     "factor": 2.0,
     "source": "MAP channel (DAQ log)",
     "required_min_frames": 830,
     "slowest_cycle_frames": 415
    }
   },
   {
    "id": "filter_defaults",
    "description": "Default baseline window (frames) and spatial Gaussian sigma/truncate for phase",
    "expert": "optical mapping analyst (cardiac electrophysiology)",
    "status": "provisional",
    "location": "worker/voltage/preprocess.py (Params)",
    "values": {
     "lowpass": null,
     "spatial_sigma": 1.0,
     "baseline_frames": 901,
     "spatial_truncate": 4.0
    }
   },
   {
    "id": "tissue_mask",
    "description": "Tissue = not NaN in frame 0 and nonzero temporal std",
    "expert": "optical mapping analyst",
    "status": "provisional",
    "location": "worker/voltage/io.py (tissue_mask)",
    "values": {
     "rule": "not NaN in frame 0 and nonzero std",
     "tissue_pixels": 2332
    }
   },
   {
    "id": "polarity",
    "description": "Dye polarity from sign of median per-pixel skew of dV/dt",
    "expert": "optical mapping analyst / voltage dye chemist",
    "status": "provisional",
    "location": "worker/voltage/preprocess.py (polarity)",
    "values": {
     "method": "median skew of dV/dt",
     "result": -1
    }
   },
   {
    "id": "singularity_detection",
    "description": "Phase singularity = |winding| > threshold turns, >= erode px from tissue edge",
    "expert": "computational cardiac electrophysiologist (phase mapping)",
    "status": "provisional",
    "location": "worker/voltage/preprocess.py (Params.rotor_threshold, rotor_erode_px)",
    "values": {
     "rotor_erode_px": 3,
     "rotor_threshold": 0.9
    }
   },
   {
    "id": "rotor_persistence",
    "description": "Track linking distance/gap and minimum lifetime for a persistent rotor",
    "expert": "computational cardiac electrophysiologist (phase mapping)",
    "status": "provisional",
    "location": "worker/voltage/rotors.py (TrackParams)",
    "values": {
     "link_px": 4.0,
     "max_gap": 5,
     "min_cycles": 1.0,
     "min_frames": 52
    }
   },
   {
    "id": "chirality_pairing",
    "description": "Opposite-charge singularities within pair distance are a pair; tracks paired most of their life are excluded from rotors",
    "expert": "computational cardiac electrophysiologist (phase mapping)",
    "status": "provisional",
    "location": "worker/voltage/rotors.py (TrackParams.pair_dist_px, paired_frac)",
    "values": {
     "paired_frac": 0.5,
     "pair_dist_px": 3.0
    }
   },
   {
    "id": "sensitivity_grid",
    "description": "Filter levels tested: spatial sigma and baseline window values",
    "expert": "optical mapping analyst",
    "status": "provisional",
    "location": "worker/voltage/sensitivity.py (SIGMAS, BASELINE_MULTIPLES, baseline_levels)",
    "values": {
     "sigmas": {
      "light": 0.5,
      "default": 1.0,
      "heavier": 2.0
     },
     "trackers": {
      "loose": [
       6.0,
       10
      ],
      "strict": [
       2.0,
       1
      ],
      "default": [
       4.0,
       5
      ]
     },
     "baselines": {
      "run": 901,
      "3x_cycle": 1356,
      "6x_cycle": 2712,
      "1.5x_cycle": 678
     }
    }
   },
   {
    "id": "analysis_window",
    "description": "Frames analysed: whole recording minus one filter pad at each end (unless the plan narrows it)",
    "expert": "cardiac electrophysiologist familiar with the dataset",
    "status": "provisional",
    "location": "worker/voltage/runs.py (default_window)",
    "values": {
     "f0": 500,
     "f1": 8767
    }
   },
   {
    "id": "prior_processing_flags",
    "description": "Thresholds for flagging depositor processing (normalization, masking, temporal/spatial smoothing)",
    "expert": "imaging scientist (camera acquisition and noise)",
    "status": "provisional",
    "location": "worker/voltage/inspect.py (prior_processing)",
    "values": {
     "flags": [
      "negative_values",
      "non_integer",
      "nan_mask_all_frames",
      "temporal_smoothing",
      "spatial_smoothing"
     ],
     "thresholds": {
      "int_frac": 0.5,
      "neg_frac": 0.01,
      "dv_autocorr": 0.5,
      "neighbour_corr": 0.8
     }
    }
   },
   {
    "id": "baseline_step_detection",
    "description": "Baseline step = consensus upward step in tissue-mean raw baseline (cause not inferred; first misread as light onset, contradicted by the DAQ)",
    "expert": "optical mapping experimentalist",
    "status": "provisional",
    "location": "worker/voltage/events.py (detect_baseline_step)",
    "values": {
     "frames": [
      3170
     ]
    }
   },
   {
    "id": "daq_interpretation",
    "description": "DAQ channel names from depositor notebook; frames = first N triggers of closest burst; midpoint thresholds",
    "expert": "experimentalist who recorded the data (or the depositor)",
    "status": "provisional",
    "location": "worker/voltage/daq.py",
    "values": {
     "events": [
      "illumination_on@0",
      "arrhythmia_termination@3153",
      "illumination_off@4977"
     ]
    }
   },
   {
    "id": "segment_definitions",
    "description": "Mouse segments bounded by DAQ light events and the baseline step, interpreted as spiral termination under illumination (project lead, from Hussaini et al. 2023)",
    "expert": "cardiac electrophysiologist (ideally the depositing authors)",
    "status": "provisional",
    "location": "worker/voltage/annotations.py (MOUSE_SEGMENTS)",
    "values": {
     "light_off": [
      4977,
      9267
     ],
     "illuminated_arrhythmia": [
      0,
      3170
     ],
     "illuminated_after_termination": [
      3170,
      4977
     ]
    }
   },
   {
    "id": "rotor_finding_criterion",
    "description": "Singularity before/after finding holds if frac(before) >= min_frac and >= min_ratio x frac(after) at every setting (also kept, superseded, for persistent rotors)",
    "expert": "cardiac electrophysiologist + biostatistician",
    "status": "provisional",
    "location": "worker/voltage/sensitivity.py (MIN_FRAC, MIN_RATIO)",
    "values": {
     "min_frac": 0.1,
     "min_ratio": 2.0
    }
   },
   {
    "id": "persistent_rotor_criterion",
    "description": "Persistent-rotor finding holds if every 'present' segment has >= 1 persistent rotor and every 'absent' segment has none, at every setting",
    "expert": "cardiac electrophysiologist",
    "status": "provisional",
    "location": "worker/voltage/sensitivity.py (MIN_ROTORS_PRESENT, MAX_ROTORS_ABSENT)",
    "values": {
     "expect": {
      "light_off": "absent",
      "illuminated_arrhythmia": "present",
      "illuminated_after_termination": "absent"
     },
     "max_absent": 0,
     "min_present": 1,
     "spanning_rotor": "counts in every segment it overlaps",
     "min_lifetime_frames": 52
    }
   },
   {
    "id": "physiology_reference_rates",
    "description": "Cited physiological ranges (single-study values widened by a 25% tolerance), applied to segments by their expected rhythm; used by the critic and for frame-rate sanity checks",
    "expert": "cardiac electrophysiologist per species",
    "status": "provisional",
    "location": "worker/voltage/physiology.py (RANGES, TOLERANCE_FRAC)",
    "values": {
     "ranges": [
      "mouse_spiral_rotation_hz"
     ],
     "tolerance_frac": 0.25,
     "segment_rhythm_rule": "expected persistent rotors 'present' -> spiral arrhythmia"
    }
   },
   {
    "id": "stability_rule",
    "description": "A metric is reportable only if its spread across all sensitivity settings is <= 25% of its median (zero spread when all values are 0); otherwise 'unstable, not reportable'",
    "expert": "biostatistician + optical mapping analyst",
    "status": "provisional",
    "location": "worker/agents/critic.py (STABLE_FRAC, stability)",
    "values": {
     "unstable": [
      "light_off.singularity_frames_frac",
      "illuminated_arrhythmia.persistent_rotors",
      "illuminated_arrhythmia.persistent_rotor_count_max",
      "illuminated_arrhythmia.dominant_freq_hz",
      "illuminated_after_termination.singularity_frames_frac",
      "persistent_rotor_tracks"
     ],
     "stable_frac": 0.25
    }
   },
   {
    "id": "persistence_threshold_variants",
    "description": "The persistent-rotor rule is run at two lifetimes, one measured cycle of the fastest segment and the paper's cited rotation period; both verdicts stored, disagreement flagged",
    "expert": "computational cardiac electrophysiologist (phase mapping)",
    "status": "provisional",
    "location": "worker/agents/critic.py (persistence_variants)",
    "values": {
     "measured_cycle": 52,
     "paper_rotation": 50
    }
   }
  ],
  "review_items": [
   {
    "topic": "unstable:light_off.singularity_frames_frac",
    "detail": "Range across settings is 0.0029023746701846965\u20130.02955145118733509, so this fraction should not be reported as a single value.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "unstable:illuminated_arrhythmia.persistent_rotors",
    "detail": "Range across filters and trackers is 4.0\u201315.0; report robust presence only, not the exact count.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "unstable:illuminated_arrhythmia.persistent_rotor_count_max",
    "detail": "Range across settings is 1.0\u20132.0, so the maximum concurrent count is not a stable single value.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "unstable:illuminated_arrhythmia.dominant_freq_hz",
    "detail": "Range across baseline windows is 15.356\u201319.85 Hz; although DOI 10.1371/journal.pcbi.1011660 gives context of approximately 20 Hz and approximately 18.75 Hz for the study, this metric is not reportable as a single value here.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "unstable:illuminated_after_termination.singularity_frames_frac",
    "detail": "Range across settings is 0.0005534034311012728\u20130.014941892639734366, so this fraction should not be reported as a single value.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "unstable:persistent_rotor_tracks",
    "detail": "Range across filters and trackers is 4.0\u201315.0, so the exact track count is unstable and not reportable.",
    "severity": "warn",
    "reviewer": "domain scientist / analysis lead"
   },
   {
    "topic": "Pre-deposit processing / raw-data label",
    "detail": "The README labels M13Rec001 as raw experimental data, but notebook documentation and prior-processing flags indicate masking, spatial smoothing, temporal smoothing, and normalization; do not treat this as raw camera photon-count data.",
    "severity": "warn",
    "reviewer": "data curator / imaging analyst"
   },
   {
    "topic": "Event interpretation at frame 3170",
    "detail": "Frame 3170 is an image baseline_step only; illumination began before frame 0 and ended at frame 4977, so frame 3170 should not be treated as light onset, and the spiral-termination label remains provisional.",
    "severity": "warn",
    "reviewer": "domain scientist"
   },
   {
    "topic": "Baseline and illumination artifact",
    "detail": "The publication reports blue-light crosstalk and re-normalization, and this recording has a large slow baseline range and a baseline step; amplitude or baseline-dependent analyses need artifact-aware review.",
    "severity": "warn",
    "reviewer": "optical mapping expert"
   },
   {
    "topic": "Provisional tool thresholds",
    "detail": "Event detection, processing flags, SNR, rhythm, and reference-rate thresholds are provisional and not yet reviewed by a domain scientist.",
    "severity": "info",
    "reviewer": "domain scientist / methods reviewer"
   }
  ],
  "reportable": [
   {
    "metric": "persistent rotor tracks",
    "segment": "all",
    "value": "4\u201315",
    "unit": "count",
    "status": "unstable, not reportable"
   },
   {
    "metric": "dominant freq (Hz)",
    "segment": "light off",
    "value": "2.375",
    "unit": "Hz",
    "status": "no cited range"
   },
   {
    "metric": "persistent rotors",
    "segment": "light off",
    "value": "0",
    "unit": "count",
    "status": "no cited range"
   },
   {
    "metric": "singularity frames fraction",
    "segment": "light off",
    "value": "0.0029\u20130.0296",
    "unit": "fraction of frames",
    "status": "unstable, not reportable"
   },
   {
    "metric": "persistent rotor count max",
    "segment": "light off",
    "value": "0",
    "unit": "count",
    "status": "no cited range"
   },
   {
    "metric": "dominant freq (Hz)",
    "segment": "illuminated arrhythmia",
    "value": "15.4\u201319.9",
    "unit": "Hz",
    "status": "unstable, not reportable"
   },
   {
    "metric": "persistent rotors",
    "segment": "illuminated arrhythmia",
    "value": "4\u201315",
    "unit": "count",
    "status": "unstable, not reportable"
   },
   {
    "metric": "dominant freq (Hz)",
    "segment": "illuminated after termination",
    "value": "2.214",
    "unit": "Hz",
    "status": "no cited range"
   },
   {
    "metric": "singularity frames fraction",
    "segment": "illuminated arrhythmia",
    "value": "0.479",
    "unit": "fraction of frames",
    "status": "no cited range"
   },
   {
    "metric": "persistent rotors",
    "segment": "illuminated after termination",
    "value": "0",
    "unit": "count",
    "status": "no cited range"
   },
   {
    "metric": "persistent rotor count max",
    "segment": "illuminated arrhythmia",
    "value": "1\u20132",
    "unit": "count",
    "status": "unstable, not reportable"
   },
   {
    "metric": "singularity frames fraction",
    "segment": "illuminated after termination",
    "value": "0.000553\u20130.0149",
    "unit": "fraction of frames",
    "status": "unstable, not reportable"
   },
   {
    "metric": "persistent rotor count max",
    "segment": "illuminated after termination",
    "value": "0",
    "unit": "count",
    "status": "no cited range"
   }
  ],
  "verdict": {
   "physiology_ok": null,
   "send_back": false,
   "notes": "Reportable as provisional descriptive findings: singularity presence during illuminated arrhythmia is stable, persistent-rotor presence during illuminated arrhythmia and absence in light_off and illuminated_after_termination are stable, and stable descriptive values with no cited ranges include light_off persistent rotors 0, light_off persistent_rotor_count_max 0, light_off dominant_freq_hz 2.375 Hz, illuminated_after_termination persistent rotors 0, illuminated_after_termination persistent_rotor_count_max 0, and illuminated_after_termination dominant_freq_hz 2.214 Hz; not reportable as single values are light_off.singularity_frames_frac 0.0029023746701846965\u20130.02955145118733509, illuminated_arrhythmia.persistent_rotors 4.0\u201315.0, illuminated_arrhythmia.persistent_rotor_count_max 1.0\u20132.0, illuminated_arrhythmia.dominant_freq_hz 15.356\u201319.85 Hz, illuminated_after_termination.singularity_frames_frac 0.0005534034311012728\u20130.014941892639734366, and persistent_rotor_tracks 4.0\u201315.0; the persistent-rotor threshold result agrees for 52 frames and for the paper-context 50 frames derived from the cited 20.0 Hz rotation period, with context from DOI 10.1371/journal.pcbi.1011660, while review is still needed for the processed-data label, frame 3170 event interpretation, illumination/baseline artifacts, and provisional thresholds; the cited ranges, the stability threshold, and the criteria are provisional."
  },
  "provenance": {
   "recording": {
    "id": "55cb4aa3-6502-45a6-a14c-85cb676fe8c3",
    "label": "Mouse heart, spiral wave and optogenetic termination (M13Rec001)",
    "source": "public",
    "source_ref": "10.5281/zenodo.10228296",
    "publication_ref": "10.1371/journal.pcbi.1011660",
    "storage_path": "public/M13Rec001_complete.npy",
    "format": "npy",
    "sha256": "3f8f2e1b8f776633089b33ccd4bf3fccb4f13140b71991f1dcd0e0a12bb48cbc",
    "size_bytes": 260958848,
    "license": "CC-BY-4.0",
    "attribution": "Hussaini, Sayedeh; Luther, Stefan; L\u00e4dke, Sarah L.",
    "rights_source": {
     "ref": "10.5281/zenodo.10228296",
     "url": "https://zenodo.org/records/10228296",
     "kind": "deposit_metadata",
     "creators": [
      "Hussaini, Sayedeh",
      "Luther, Stefan",
      "L\u00e4dke, Sarah L."
     ],
     "license_as_stated": "cc-by-4.0"
    },
    "frame_rate_hz": 1000,
    "frame_rate_source": {
     "ref": "10.1371/journal.pcbi.1011660",
     "kind": "publication",
     "note": "Camera frames are 64 x 64 in the paper; the deposit is 64 x 55 (cropped). Consistent with the DAQ: 10 samples per frame and a 5 s light pulse spanning 50,001 samples imply a 10 kHz DAQ.",
     "quote": " 775 \u00b1 70nm bandpass filter (FF01\u2013775/140-25, Semrock) and finally by the camera (EMCCD, Cascade 128+, Photometrics) with a spatial resolution of 64 \u00d7 64 pixels (133 \u03bcm per pixel) at 1 kHz. Optical Mapping recordings were acquired with software MultiRecorder and analysed with software PythonAnalyser (both developed by Research Group Biomedical Physics). Electrical s",
     "section": "Materials and methods: Optical mapping experiments on ventricular arrhythmia and its termination in the intact mouse heart"
    },
    "pixel_size_um": 133,
    "pixel_size_source": {
     "ref": "10.1371/journal.pcbi.1011660",
     "kind": "publication",
     "note": "paper states 64 x 64 px at 133 um; the deposit is 64 x 55 (cropped, not rebinned)",
     "quote": "rst collected by a 775 \u00b1 70nm bandpass filter (FF01\u2013775/140-25, Semrock) and finally by the camera (EMCCD, Cascade 128+, Photometrics) with a spatial resolution of 64 \u00d7 64 pixels (133 \u03bcm per pixel) at 1 kHz. Optical Mapping recordings were acquired with software MultiRecorder and analysed with software PythonAnalyser (both developed by Research Group Biomedical Physics). El"
    },
    "frames": 9267,
    "height": 64,
    "width": 55,
    "inverted": true
   },
   "protocol": {
    "id": "f65d786f-f194-4be2-88b8-10d3dd25d674",
    "name": "Mouse whole heart optical mapping (Luther lab)",
    "species": "mouse",
    "tissue": "whole_heart",
    "params_version": 3,
    "params_set_by": "developer (not a domain scientist)",
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         "quote": "t stimulus with LI = 3.44 \u03bcW/mm2 and PL = 5 s. Fig 2C shows a monophasic action potential (MAP) signal (in black) before, during, and after illumination. It shows the sinus rhythm returns after 3190 ms of illumination. Fig 2D presents a closer look at the MAP signal of the heart during the last few rotations of arrhythmia and the first few action potentials of sinus rhythm. Fig 2E illustrates a"
        },
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         "quote": "t stimulus with LI = 3.44 \u03bcW/mm2 and PL = 5 s. Fig 2C shows a monophasic action potential (MAP) signal (in black) before, during, and after illumination. It shows the sinus rhythm returns after 3190 ms of illumination. Fig 2D presents a closer look at the MAP signal of the heart during the last few rotations of arrhythmia and the first few action potentials of sinus rhythm. Fig 2E illustrates a"
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         "quote": "t stimulus with LI = 3.44 \u03bcW/mm2 and PL = 5 s. Fig 2C shows a monophasic action potential (MAP) signal (in black) before, during, and after illumination. It shows the sinus rhythm returns after 3190 ms of illumination. Fig 2D presents a closer look at the MAP signal of the heart during the last few rotations of arrhythmia and the first few action potentials of sinus rhythm. Fig 2E illustrates a"
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       "quote": " 775 \u00b1 70nm bandpass filter (FF01\u2013775/140-25, Semrock) and finally by the camera (EMCCD, Cascade 128+, Photometrics) with a spatial resolution of 64 \u00d7 64 pixels (133 \u03bcm per pixel) at 1 kHz. Optical Mapping recordings were acquired with software MultiRecorder and analysed with software PythonAnalyser (both developed by Research Group Biomedical Physics). Electrical s",
       "section": "Materials and methods: Optical mapping experiments on ventricular arrhythmia and its termination in the intact mouse heart"
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 }
}