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"intersections": 8 }, { "radius": 120, "intersections": 7 }, { "radius": 160, "intersections": 0 }, { "radius": 200, "intersections": 0 }, { "radius": 260, "intersections": 0 } ] } ] }, "requestedHours": 72, "simulatedHours": 72, "finite": true, "lengthReconstructionErrorUm": 1.4551915228366852e-10, "geometryAudit": { "liveSegments": 17308, "solidPenetrations": 0, "somaPenetrations": 0, "boundaryViolations": 0, "unrelatedShaftPenetrations": 0, "coneSolidPenetrations": 0, "coneSomaPenetrations": 0, "coneShaftPenetrations": 0, "coneConePenetrations": 0, "shaftPairsChecked": 213348, "maximumMembraneBudgetResidualUm2": 2.646629582159221e-9 }, "limits": { "reached": false, "reason": null, "segmentCap": 26000, "tipCap": 32, "tipLimitedCount": 0 } } ], "ensemble": { "seeds": [ 101, 202, 303, 404, 505 ], "durationHours": 24, "cellCount": 4, "cases": [ { "seed": 101, "initialLengthUm": 47.499999999999964, "finalLengthUm": 3226.2479617325894, "addedLengthUm": 3178.7479617325894, 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0.5000000000000426, "totalDendriteLengthUm": 1.6249999999984823, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 340 }, { "seed": 303, "initialLengthUm": 47.50000000000002, "finalLengthUm": 2.375000000000086, "addedLengthUm": -45.124999999999936, "totalAxonLengthUm": 0.5000000000003846, "totalDendriteLengthUm": 1.8749999999997016, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 380 }, { "seed": 404, "initialLengthUm": 44.99999999999999, "finalLengthUm": 2.249999999999464, "addedLengthUm": -42.750000000000526, "totalAxonLengthUm": 0.5000000000002631, "totalDendriteLengthUm": 1.7499999999992004, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 360 }, { "seed": 505, "initialLengthUm": 44.99999999999998, "finalLengthUm": 2.249999999999319, "addedLengthUm": -42.75000000000066, "totalAxonLengthUm": 0.5000000000001386, "totalDendriteLengthUm": 1.7499999999991804, "branches": 0, "contacts": 0, "collisionEvents": 0, 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"initialLengthUm": 44.99999999999999, "finalLengthUm": 2.249999999999464, "addedLengthUm": -42.750000000000526, "totalAxonLengthUm": 0.5000000000002631, "totalDendriteLengthUm": 1.7499999999992004, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 360 }, { "seed": 505, "initialLengthUm": 44.99999999999998, "finalLengthUm": 2.249999999999319, "addedLengthUm": -42.75000000000066, "totalAxonLengthUm": 0.5000000000001386, "totalDendriteLengthUm": 1.7499999999991804, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 360 } ] }, { "id": "no-membrane-supply", "override": { "membraneSupply": 0 }, "cases": [ { "seed": 101, "initialLengthUm": 47.499999999999964, "finalLengthUm": 499.75259030046186, "addedLengthUm": 452.2525903004619, "totalAxonLengthUm": 299.4980450678596, "totalDendriteLengthUm": 200.25454523260242, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 979 }, { "seed": 202, "initialLengthUm": 42.49999999999996, "finalLengthUm": 481.0912153524023, "addedLengthUm": 438.59121535240234, "totalAxonLengthUm": 358.32718778569455, "totalDendriteLengthUm": 122.76402756670782, "branches": 5, "contacts": 0, "collisionEvents": 2, "retractionSteps": 1078 }, { "seed": 303, "initialLengthUm": 47.50000000000002, "finalLengthUm": 464.0003132310496, "addedLengthUm": 416.5003132310496, "totalAxonLengthUm": 295.46315522572655, "totalDendriteLengthUm": 168.5371580053232, "branches": 3, "contacts": 0, "collisionEvents": 0, "retractionSteps": 1134 }, { "seed": 404, "initialLengthUm": 44.99999999999999, "finalLengthUm": 483.1077356634113, "addedLengthUm": 438.1077356634113, "totalAxonLengthUm": 323.89416364181113, "totalDendriteLengthUm": 159.2135720216002, "branches": 2, "contacts": 0, "collisionEvents": 2, "retractionSteps": 1029 }, { "seed": 505, "initialLengthUm": 44.99999999999998, "finalLengthUm": 482.45052362522813, "addedLengthUm": 437.45052362522813, "totalAxonLengthUm": 337.6916955047435, "totalDendriteLengthUm": 144.75882812048496, "branches": 3, "contacts": 0, "collisionEvents": 0, "retractionSteps": 1232 } ] }, { "id": "high-membrane-tension", "override": { "tension": 3 }, "cases": [ { "seed": 101, "initialLengthUm": 47.499999999999964, "finalLengthUm": 2.3750000000004503, "addedLengthUm": -45.12499999999952, "totalAxonLengthUm": 0.5000000000004313, "totalDendriteLengthUm": 1.8750000000000187, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 380 }, { "seed": 202, "initialLengthUm": 42.49999999999996, "finalLengthUm": 2.124999999998525, "addedLengthUm": -40.375000000001435, "totalAxonLengthUm": 0.5000000000000426, "totalDendriteLengthUm": 1.6249999999984823, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 340 }, { "seed": 303, "initialLengthUm": 47.50000000000002, "finalLengthUm": 2.375000000000086, "addedLengthUm": -45.124999999999936, "totalAxonLengthUm": 0.5000000000003846, "totalDendriteLengthUm": 1.8749999999997016, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 380 }, { "seed": 404, "initialLengthUm": 44.99999999999999, "finalLengthUm": 2.249999999999464, "addedLengthUm": -42.750000000000526, "totalAxonLengthUm": 0.5000000000002631, "totalDendriteLengthUm": 1.7499999999992004, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 360 }, { "seed": 505, "initialLengthUm": 44.99999999999998, "finalLengthUm": 2.249999999999319, "addedLengthUm": -42.75000000000066, "totalAxonLengthUm": 0.5000000000001386, "totalDendriteLengthUm": 1.7499999999991804, "branches": 0, "contacts": 0, "collisionEvents": 0, "retractionSteps": 360 } ] }, { "id": "no-branching", "override": { "branching": 0 }, "cases": [ { "seed": 101, "initialLengthUm": 47.499999999999964, "finalLengthUm": 2996.555145278337, "addedLengthUm": 2949.055145278337, "totalAxonLengthUm": 1013.8208431126566, "totalDendriteLengthUm": 1982.7343021656807, "branches": 0, "contacts": 0, "collisionEvents": 8, "retractionSteps": 22 }, { "seed": 202, "initialLengthUm": 42.49999999999996, "finalLengthUm": 2652.6162489360318, "addedLengthUm": 2610.1162489360318, "totalAxonLengthUm": 987.4015106125457, "totalDendriteLengthUm": 1665.214738323482, "branches": 0, "contacts": 1, "collisionEvents": 5, "retractionSteps": 21 }, { "seed": 303, "initialLengthUm": 47.50000000000002, "finalLengthUm": 2897.1195857124007, "addedLengthUm": 2849.6195857124007, "totalAxonLengthUm": 995.8248178299496, "totalDendriteLengthUm": 1901.2947678824476, "branches": 0, "contacts": 2, "collisionEvents": 3, "retractionSteps": 32 }, { "seed": 404, "initialLengthUm": 44.99999999999999, "finalLengthUm": 2883.9416600252544, "addedLengthUm": 2838.9416600252544, "totalAxonLengthUm": 985.2239659344046, "totalDendriteLengthUm": 1898.7176940908485, "branches": 0, "contacts": 0, "collisionEvents": 1, "retractionSteps": 16 }, { "seed": 505, "initialLengthUm": 44.99999999999998, "finalLengthUm": 2863.6566767590793, "addedLengthUm": 2818.6566767590793, "totalAxonLengthUm": 1016.726928459957, "totalDendriteLengthUm": 1846.9297482991224, "branches": 0, "contacts": 0, "collisionEvents": 6, "retractionSteps": 20 } ] } ], "interpretation": "Matched initial seeds and clamped soma surfaces isolate growth-cone interventions from elastic root stretching. Event streams may diverge after interventions; these are model causal controls, not biological effect estimates." }, "performance": { "scope": "Actual Node engine wall time excluding browser rendering, page load and network. Hardware dependent.", "measurements": [ { "id": "positive-driver", "elapsedMs": 99.84170899999998, "simulatedHours": 8, "clampedSomata": true, "cellCount": 1, "segmentCount": 68 }, { "id": "zero-actin", "elapsedMs": 25.879727000000003, "simulatedHours": 8, "clampedSomata": true, "cellCount": 1, "segmentCount": 4 }, { "id": "zero-microtubules", "elapsedMs": 35.324303999999984, "simulatedHours": 8, "clampedSomata": true, "cellCount": 1, "segmentCount": 4 }, { "id": "dt-0.05", "elapsedMs": 456.833782, "simulatedHours": 4, "clampedSomata": false, "cellCount": 1, "segmentCount": 24 }, { "id": "dt-0.025", "elapsedMs": 380.525436, "simulatedHours": 4, "clampedSomata": false, "cellCount": 1, "segmentCount": 24 }, { "id": "dt-0.0125", "elapsedMs": 278.62686799999983, "simulatedHours": 4, "clampedSomata": false, "cellCount": 1, "segmentCount": 24 }, { "id": "membrane-supply-0", "elapsedMs": 1790.2283710000002, "simulatedHours": 24, "clampedSomata": false, "cellCount": 1, "segmentCount": 59 }, { 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false, "cellCount": 12, "segmentCount": 14339 }, { "id": "environment-biohybrid-72h", "elapsedMs": 1995780.4536439995, "simulatedHours": 72, "clampedSomata": false, "cellCount": 14, "segmentCount": 17709 }, { "id": "ensemble-baseline-101", "elapsedMs": 1561.99893300049, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1214 }, { "id": "ensemble-baseline-202", "elapsedMs": 1602.8349460000172, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1126 }, { "id": "ensemble-baseline-303", "elapsedMs": 1300.9591840002686, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1084 }, { "id": "ensemble-baseline-404", "elapsedMs": 1371.6803910005838, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1102 }, { "id": "ensemble-baseline-505", "elapsedMs": 1380.3582579996437, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1134 }, { "id": "ensemble-no-actin-101", "elapsedMs": 60.668899999931455, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 19 }, { "id": "ensemble-no-actin-202", "elapsedMs": 54.078329000622034, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 17 }, { "id": "ensemble-no-actin-303", "elapsedMs": 60.33867199998349, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 19 }, { "id": "ensemble-no-actin-404", "elapsedMs": 58.74599199928343, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 18 }, { "id": "ensemble-no-actin-505", "elapsedMs": 60.69789000041783, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 18 }, { "id": "ensemble-no-microtubules-101", "elapsedMs": 59.798564000055194, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 19 }, { "id": "ensemble-no-microtubules-202", "elapsedMs": 53.46976400073618, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, 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"ensemble-no-membrane-supply-404", "elapsedMs": 746.0607579993084, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 266 }, { "id": "ensemble-no-membrane-supply-505", "elapsedMs": 690.3326959991828, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 272 }, { "id": "ensemble-high-membrane-tension-101", "elapsedMs": 75.54582000058144, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 19 }, { "id": "ensemble-high-membrane-tension-202", "elapsedMs": 56.65764100011438, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 17 }, { "id": "ensemble-high-membrane-tension-303", "elapsedMs": 66.83532200008631, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 19 }, { "id": "ensemble-high-membrane-tension-404", "elapsedMs": 58.53210000041872, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 18 }, { "id": "ensemble-high-membrane-tension-505", "elapsedMs": 58.27201499976218, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 18 }, { "id": "ensemble-no-branching-101", "elapsedMs": 1033.8172880001366, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1093 }, { "id": "ensemble-no-branching-202", "elapsedMs": 1009.8625980000943, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 963 }, { "id": "ensemble-no-branching-303", "elapsedMs": 1097.6433039996773, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1055 }, { "id": "ensemble-no-branching-404", "elapsedMs": 988.697492999956, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1054 }, { "id": "ensemble-no-branching-505", "elapsedMs": 1030.304825999774, "simulatedHours": 24, "clampedSomata": true, "cellCount": 4, "segmentCount": 1040 } ] }, "knownLimits": [ "Human differentiation timing, growth velocities and model force parameters have not been fitted to a specified cell protocol.", "Organoid mode samples neurons in a constrained volume; it does not reproduce full organogenesis, cell proliferation or tissue metabolism.", "Persistent candidate contacts are not demonstrated functional synapses.", "Myelination and detailed electrophysiology are outside this release." ] }