Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/spec.json +0 -0
- paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/trajectory_generated_coordinates.csv +0 -0
- paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/trajectory_provenance.json +214 -0
- paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/trajectory_recorded_points.npz +3 -0
paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/spec.json
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paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/trajectory_generated_coordinates.csv
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paper-releases/pbisc-diffusion/updates/20261013T072655Z-enriched-140-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/figure_enrichment_20261013/trajectory_provenance.json
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| 1 |
+
{
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| 2 |
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"schema": "pbisc.figure1.recorded-pca-trajectory.v1",
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| 3 |
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"created_at_utc": "2026-10-13T06:52:24.105196+00:00",
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| 4 |
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"scope": "Existing ctx2048 E12 EMA illustration; one GSE135779 donor pseudobulk; not final-base or paired bulk-sc validation.",
|
| 5 |
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"public_source": "https://www.virtualhumanlab.com/research/pbisc-diffusion/",
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| 6 |
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"caption": "Four recorded noisy-state PCA frames (steps 0, 17, 33 and 50) from an existing ctx2048 E12 EMA run. All 4,096 tracked cells retain their row identities; axes are fitted once on 4,362 observed cells from the conditioning donor. Colours use frozen final predicted PBMC5+Other labels, revealed according to step/50; early states were not classified. This is computational denoising, not biological time, and the same-donor reference is not independent validation.",
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| 7 |
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"selected_steps": [
|
| 8 |
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0,
|
| 9 |
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17,
|
| 10 |
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33,
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| 11 |
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50
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| 12 |
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],
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| 13 |
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"selection_reason": "Start, approximately one-third, two-thirds and endpoint of the 50-step recorded sequence; no outcome-based frame selection.",
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| 14 |
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"state_times": [
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| 15 |
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1.0,
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| 16 |
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0.6600000262260437,
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| 17 |
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0.3400000035762787,
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| 18 |
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0.0
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| 19 |
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],
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| 20 |
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"projection": "PCA2 fitted once on canonically encoded observed value/support states over common measured genes. Generated noisy states are selected and projected without clipping, rescaling or library normalization.",
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| 21 |
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"axis_limits": {
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| 22 |
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"x": [
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| 23 |
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-11.447202682495117,
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| 24 |
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| 25 |
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],
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| 26 |
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"y": [
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| 27 |
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| 28 |
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17.416305541992188
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| 29 |
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]
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| 30 |
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},
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| 31 |
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"coordinate_fit_repeated": false,
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| 32 |
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"new_inference": false,
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| 33 |
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"new_annotation": false,
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| 34 |
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"coordinate_interpolation": false,
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| 35 |
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"point_subsampling": false,
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| 36 |
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"tracked_rows": 4096,
|
| 37 |
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"observed_rows": 4362,
|
| 38 |
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"point_identity": "Stable row index from the existing recorded coordinate tensor, 0 through 4095",
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| 39 |
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"color_semantics": {
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| 40 |
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"label_source": "final endpoint annotation only",
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| 41 |
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"reveal_fraction": [
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| 42 |
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0.0,
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| 43 |
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0.34,
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| 44 |
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0.66,
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| 45 |
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1.0
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| 46 |
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],
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| 47 |
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"rule": "RGB = neutral_grey + (step/50) * (endpoint_type_RGB - neutral_grey)",
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| 48 |
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| 49 |
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"endpoint_confidence_used_for_color": false
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| 50 |
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},
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| 51 |
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"verification": {
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| 52 |
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"web_binary_hash_matches_local_manifest": true,
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| 53 |
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"website_and_npz_pca_bit_identical": true,
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| 54 |
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"website_and_npz_reference_bit_identical": true,
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| 55 |
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"tracked_endpoint_labels_equal": true,
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| 56 |
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"all_recorded_frames_inside_fixed_bounds": true
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| 57 |
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},
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| 58 |
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"sources": [
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| 59 |
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| 60 |
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