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CellHIST-Bench

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spatial-transcriptomics
single-cell
histopathology
whole-slide-image
gene-expression
computational-pathology
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light0515 CellHIST-Bench commited on
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Duplicate from CellHIST-Bench/CellHIST-Bench

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Co-authored-by: Nips-CellHIST-Bench <CellHIST-Bench@users.noreply.huggingface.co>

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  1. .gitattributes +80 -0
  2. Bladder/cellvit++_seg/NCBI600.h5 +3 -0
  3. Bladder/cellvit++_seg/NCBI600_seg.parquet +3 -0
  4. Bladder/patches/NCBI600.h5 +3 -0
  5. Bladder/patches_cell/NCBI600.json +1 -0
  6. Bladder/st_spot_label/NCBI600.h5ad +3 -0
  7. Bowel/cellvit++_seg/ZEN45.h5 +3 -0
  8. Bowel/cellvit++_seg/ZEN45_seg.parquet +3 -0
  9. Bowel/patches/ZEN45.h5 +3 -0
  10. Bowel/patches_cell/ZEN45.json +0 -0
  11. Bowel/st_spot_label/ZEN45.h5ad +3 -0
  12. Brain/cellvit++_seg/MEND66.h5 +3 -0
  13. Brain/cellvit++_seg/MEND66_seg.parquet +3 -0
  14. Brain/patches/MEND66.h5 +3 -0
  15. Brain/patches_cell/MEND66.json +0 -0
  16. Brain/st_spot_label/MEND66.h5ad +3 -0
  17. Breast/cellvit++_seg/SPA118.h5 +3 -0
  18. Breast/cellvit++_seg/SPA118_seg.parquet +3 -0
  19. Breast/patches/SPA118.h5 +3 -0
  20. Breast/patches_cell/SPA118.json +1 -0
  21. Breast/st_spot_label/SPA118.h5ad +3 -0
  22. Cervix/cellvit++_seg/TENX50.h5 +3 -0
  23. Cervix/cellvit++_seg/TENX50_seg.parquet +3 -0
  24. Cervix/patches/TENX50.h5 +3 -0
  25. Cervix/patches_cell/TENX50.json +0 -0
  26. Cervix/st_spot_label/TENX50.h5ad +3 -0
  27. Cervix/wsis/TENX50.tif +3 -0
  28. Kidney/cellvit++_seg/INT1.h5 +3 -0
  29. Kidney/cellvit++_seg/INT1_seg.parquet +3 -0
  30. Kidney/patches/INT1.h5 +3 -0
  31. Kidney/patches_cell/INT1.json +0 -0
  32. Kidney/st_spot_label/INT1.h5ad +3 -0
  33. Liver/cellvit++_seg/NCBI643.h5 +3 -0
  34. Liver/cellvit++_seg/NCBI643_seg.parquet +3 -0
  35. Liver/patches/NCBI643.h5 +3 -0
  36. Liver/patches_cell/NCBI643.json +0 -0
  37. Liver/st_spot_label/NCBI643.h5ad +3 -0
  38. Lung/cellvit++_seg/TENX118.h5 +3 -0
  39. Lung/cellvit++_seg/TENX118_seg.parquet +3 -0
  40. Lung/cellvit++_seg/TENX118_st_cell_idx.parquet +3 -0
  41. Lung/patches/TENX118.h5 +3 -0
  42. Lung/patches_cell/TENX118.json +0 -0
  43. Lung/st_cell_label/TENX118.h5ad +3 -0
  44. Lung/st_spot_label/TENX118.h5ad +3 -0
  45. Lung/wsis/TENX118.tif +3 -0
  46. Lymph node/cellvit++_seg/NCBI681.h5 +3 -0
  47. Lymph node/cellvit++_seg/NCBI681_seg.parquet +3 -0
  48. Lymph node/patches/NCBI681.h5 +3 -0
  49. Lymph node/patches_cell/NCBI681.json +0 -0
  50. Lymph node/st_spot_label/NCBI681.h5ad +3 -0
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2657, 2662, 2706, 2707, 2712, 2716, 2718, 2721, 2724, 2725, 2731, 2734, 2736, 2738], "in_spot": [0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 1, 0, 0, 0]}, "CGCATGGTGCGATGCT-1": {"cell_index": [536, 537, 539, 540, 541, 542, 544, 545, 779, 780, 781, 782, 783], "in_spot": [0, 0, 1, 0, 0, 0, 1, 1, 0, 0, 0, 0, 0]}, "CGCATTAGCTAATAGG-1": {"cell_index": [1005, 1009, 1010, 1015, 1017, 1018, 1019, 1459, 1460], "in_spot": [0, 0, 0, 1, 0, 0, 0, 0, 0]}, "CGCCTCCCTCCTCTAT-1": {"cell_index": [], "in_spot": []}, "CGCGCATGTTTGATTG-1": {"cell_index": [1866, 1868, 1869, 1870, 1871, 1872], "in_spot": [0, 0, 0, 0, 0, 0]}, "CGCGTTCATGAAATAC-1": {"cell_index": [1499, 2032, 2034, 2037, 2038, 2042, 2043, 2047], "in_spot": [0, 0, 0, 0, 0, 0, 0, 0]}, "CGCTACGGGACATTTA-1": {"cell_index": [2337, 2344, 2345, 2348, 2350, 2351, 2352, 2353, 2355, 2358, 2362, 2364, 2368, 2398, 2404], "in_spot": [0, 1, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]}, "CGCTATTCTTAGGCTC-1": {"cell_index": [1175, 1176, 1178, 1185, 1190, 1191, 1193], "in_spot": [0, 0, 0, 0, 0, 0, 0]}, "CGCTCGACATAATGAT-1": {"cell_index": [2521, 2525, 2526, 2527, 2529, 2533, 2536, 2539, 2540, 2544], "in_spot": [0, 0, 0, 0, 1, 0, 1, 0, 0, 0]}, "CGCTCTCCGTAGATTA-1": {"cell_index": [3407, 3408, 3409, 3429, 3430, 3433], "in_spot": [1, 0, 0, 0, 0, 0]}, "CGCTGTGACGCCGCAC-1": {"cell_index": [2027, 2070, 2071, 2595, 2597, 2606], "in_spot": [1, 1, 0, 0, 0, 0]}, "CGCTTATTCCCGGTCG-1": {"cell_index": [], "in_spot": []}, "CGCTTCCACTGAAATC-1": {"cell_index": [2509, 2510, 2512, 3080], "in_spot": [0, 0, 1, 0]}, "CGGAACGTAAACATAG-1": {"cell_index": [3002, 3036, 3037, 3038], "in_spot": [0, 0, 1, 1]}, "CGGAGCAATTTAATCG-1": {"cell_index": [853, 1298], "in_spot": [0, 0]}, "CGGAGCATGGCGATCC-1": {"cell_index": [507, 532, 535, 538, 541, 543], "in_spot": [0, 0, 0, 0, 0, 0]}, "CGGAGTTTGAGAGACA-1": {"cell_index": [3404, 3424], "in_spot": [0, 0]}, "CGGCAAACATCGTGCG-1": {"cell_index": [569, 833, 847], "in_spot": [0, 0, 0]}, "CGGCCACGCACAAAGT-1": {"cell_index": [1145, 1146, 1147, 1149, 1151, 1152, 1153, 1154, 1155, 1162], "in_spot": [0, 1, 1, 0, 1, 0, 1, 1, 1, 1]}, "CGGGAATTTATGTAAA-1": {"cell_index": [553, 816, 817, 819, 821, 822], "in_spot": [0, 1, 0, 0, 0, 0]}, "CGGGATCAATGTAAGA-1": {"cell_index": [935, 967, 968, 969, 970, 971, 972, 973, 974, 975], "in_spot": [0, 0, 0, 0, 1, 0, 1, 0, 1, 1]}, "CGGGCAGCTAAACCGC-1": {"cell_index": [1127, 1128, 1130, 1132, 1133, 1134, 1136, 1138, 1139, 1552, 1553, 1555, 1556, 1558, 1565, 1566, 1568, 1569, 1571], "in_spot": [0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0]}, "CGGGCCTTCTTTGTAA-1": {"cell_index": [1788, 1794, 1797, 1838], "in_spot": [0, 0, 0, 0]}, "CGGTGCAGATAGAACG-1": {"cell_index": [3485, 3486, 3487, 3489, 3490, 3491, 3493], "in_spot": [0, 0, 0, 0, 0, 0, 0]}, "CGGTGCGCGTTGGTCC-1": {"cell_index": [3342, 3343, 3344, 3345, 3346, 3347, 3348, 3349, 3350, 3351, 3352, 3369, 3371, 3372], "in_spot": [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]}, "CGTATTAAGAGATCTA-1": {"cell_index": [1568, 1569, 1571, 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