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fourmodal-pathology-bind

Feature Extraction
PyTorch
pathology
multimodal
imagebind
spatial-transcriptomics
multiplex-immunofluorescence
contrastive-learning
Model card Files
xet
 Community
fourmodal-pathology-bind
File size: 2,307 Bytes
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{
 "n_tiles": 3187,
 "n_slides": 41,
 "n_patients": 40,
 "official_split_tiles": {
  "train": 2954,
  "val": 124,
  "test": 109
 },
 "official_split_slides": {
  "test": 2,
  "train": 37,
  "val": 2
 },
 "if_batches_tiles": {
  "C59mX": 919,
  "C59qX": 830,
  "C59nX": 781,
  "C59kX": 657
 },
 "if_batches_patients": {
  "C59kX": 9,
  "C59mX": 10,
  "C59nX": 11,
  "C59qX": 10
 },
 "tiles_per_slide": {
  "count": 41.0,
  "mean": 77.7,
  "std": 27.8,
  "min": 30.0,
  "25%": 61.0,
  "50%": 74.0,
  "75%": 94.0,
  "max": 138.0
 },
 "shapes": {
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  ],
  "if": [
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  ],
  "nuclei": [
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  ],
  "markers": 33
 },
 "if_channel_names_from_prop_cols": [
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  "CD31",
  "CD45",
  "CD68",
  "CD4",
  "FOXP3",
  "CD8a",
  "CD45RO",
  "CD20",
  "PD-L1",
  "CD3e",
  "CD163",
  "E-cadherin",
  "PD-1",
  "Ki67",
  "Pan-CK",
  "SMA"
 ],
 "n_nuclei_per_tile": {
  "count": 3187.0,
  "mean": 161.0,
  "std": 125.7,
  "min": 0.0,
  "25%": 55.5,
  "50%": 138.0,
  "75%": 248.5,
  "max": 716.0
 },
 "frac_tiles_lt20_nuclei": 0.11797929086915594,
 "he_mean_vs_n_nuclei_spearman": -0.7460299808394185,
 "marker_prop_mean": {
  "Hoechst_prop": 0.4281,
  "CD31_prop": 0.0124,
  "CD45_prop": 0.256,
  "CD68_prop": 0.0599,
  "CD4_prop": 0.1231,
  "FOXP3_prop": 0.0057,
  "CD8a_prop": 0.0286,
  "CD45RO_prop": 0.0787,
  "CD20_prop": 0.0257,
  "PD-L1_prop": 0.0583,
  "CD3e_prop": 0.0618,
  "CD163_prop": 0.0576,
  "E-cadherin_prop": 0.1906,
  "PD-1_prop": 1.0,
  "Ki67_prop": 0.0417,
  "Pan-CK_prop": 0.2436,
  "SMA_prop": 0.1104
 },
 "marker_count_mean": {
  "CD31_count": 4.39,
  "CD45_count": 74.46,
  "CD68_count": 13.49,
  "CD4_count": 36.15,
  "FOXP3_count": 4.47,
  "CD8a_count": 11.01,
  "CD45RO_count": 29.72,
  "CD20_count": 12.06,
  "PD-L1_count": 13.95,
  "CD3e_count": 41.11,
  "CD163_count": 13.13,
  "E-cadherin_count": 47.45,
  "PD-1_count": 17.29,
  "Ki67_count": 23.76,
  "Pan-CK_count": 52.44,
  "SMA_count": 13.18
 },
 "if_channel_mean_intensity": {
  "Hoechst": 21.51,
  "CD31": 0.4,
  "CD45": 9.22,
  "CD68": 1.55,
  "CD4": 3.45,
  "FOXP3": 0.14,
  "CD8a": 0.88,
  "CD45RO": 2.49,
  "CD20": 0.82,
  "PD-L1": 2.08,
  "CD3e": 2.45,
  "CD163": 1.51,
  "E-cadherin": 7.26,
  "PD-1": 105.61,
  "Ki67": 1.37,
  "Pan-CK": 8.59,
  "SMA": 3.21
 }
}