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popV
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tabula_sapiens_Endothelium

Joblib
popV
biology
genomics
single-cell
anndata_version:0.11.1
tissue: diverse
Model card Files Community
canergen commited on
Commit
2a447dc
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1 Parent(s): c52f9b8

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  1. OnClass.data-00000-of-00001 +1 -1
  2. OnClass.index +0 -0
  3. OnClass.meta +0 -0
  4. OnClass.npz +1 -1
  5. accuracies.json +2 -2
  6. celltypist.pkl +3 -0
  7. faiss_index.faiss +1 -1
  8. harmony_knn_classifier.joblib +3 -0
  9. popv_output/predictions.csv +0 -0
  10. preprocessing.json +0 -0
  11. scanvi/model.pt +3 -0
  12. scvi/model.pt +3 -0
  13. scvi_knn_classifier.joblib +3 -0
  14. svm_classifier.joblib +3 -0
  15. svm_classifier_cuml.joblib +3 -0
  16. xgboost_classifier.model +3 -0
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OnClass.meta CHANGED
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accuracies.json CHANGED
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- "query_accuracy": "| Cell Type | N cells | onclass | Consensus Prediction |\n| --- | --- | --- | --- |\n| endothelial cell | 3130 | 0.00 | 0.00 |\n| capillary endothelial cell | 1568 | 0.00 | 0.00 |\n| cardiac endothelial cell | 1057 | 0.00 | 0.00 |\n| vein endothelial cell | 454 | 0.00 | 0.00 |\n| endothelial cell of artery | 340 | 0.00 | 0.00 |\n| endothelial cell of lymphatic vessel | 258 | 0.00 | 0.00 |\n| retinal blood vessel endothelial cell | 175 | 0.00 | 0.00 |\n| endothelial cell of vascular tree | 69 | 0.00 | 0.00 |\n| colon endothelial cell | 23 | 0.00 | 0.00 |\n| endothelial cell of arteriole | 9 | 0.00 | 0.00 |\n| endothelial cell of venule | 0 | 0.00 | 0.00 |",
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- "ref_accuracy": "| Cell Type | N cells | onclass | Consensus Prediction |\n| --- | --- | --- | --- |\n| endothelial cell | 30340 | 0.00 | 0.00 |\n| capillary endothelial cell | 13720 | 0.00 | 0.00 |\n| cardiac endothelial cell | 9023 | 0.00 | 0.00 |\n| vein endothelial cell | 4234 | 0.00 | 0.00 |\n| endothelial cell of artery | 3125 | 0.00 | 0.00 |\n| endothelial cell of lymphatic vessel | 2166 | 0.00 | 0.00 |\n| retinal blood vessel endothelial cell | 1881 | 0.00 | 0.00 |\n| endothelial cell of vascular tree | 800 | 0.00 | 0.00 |\n| colon endothelial cell | 297 | 0.00 | 0.00 |\n| endothelial cell of arteriole | 105 | 0.00 | 0.00 |\n| endothelial cell of venule | 44 | 0.00 | 0.00 |"
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  }
 
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+ "query_accuracy": "| Cell Type | N cells | celltypist | knn on bbknn | knn on harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| endothelial cell | 3243 | 0.76 | 0.86 | 0.73 | 0.65 | 0.00 | 0.49 | 0.71 | 0.78 | 0.84 |\n| capillary endothelial cell | 1508 | 0.75 | 0.82 | 0.57 | 0.53 | 0.00 | 0.56 | 0.70 | 0.77 | 0.80 |\n| cardiac endothelial cell | 962 | 0.97 | 0.97 | 0.67 | 0.51 | 0.00 | 0.00 | 0.94 | 0.96 | 0.97 |\n| vein endothelial cell | 453 | 0.50 | 0.47 | 0.29 | 0.13 | 0.00 | 0.30 | 0.45 | 0.52 | 0.55 |\n| endothelial cell of artery | 363 | 0.63 | 0.71 | 0.45 | 0.24 | 0.00 | 0.56 | 0.56 | 0.65 | 0.70 |\n| endothelial cell of lymphatic vessel | 253 | 0.69 | 0.75 | 0.56 | 0.53 | 0.00 | 0.62 | 0.68 | 0.72 | 0.75 |\n| retinal blood vessel endothelial cell | 199 | 0.57 | 0.24 | 0.21 | 0.07 | 0.00 | 0.07 | 0.55 | 0.65 | 0.52 |\n| endothelial cell of vascular tree | 90 | 0.36 | 0.72 | 0.21 | 0.40 | 0.00 | 0.04 | 0.50 | 0.66 | 0.74 |\n| colon endothelial cell | 23 | 0.41 | 0.20 | 0.39 | 0.07 | 0.00 | 0.00 | 0.26 | 0.30 | 0.52 |\n| endothelial cell of arteriole | 8 | 0.00 | 0.18 | 0.46 | 0.00 | 0.00 | 0.00 | 0.19 | 0.42 | 0.67 |\n| endothelial cell of venule | 4 | 0.00 | 0.40 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.33 | 0.00 |",
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+ "ref_accuracy": "| Cell Type | N cells | celltypist | knn on bbknn | knn on harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| endothelial cell | 30249 | 0.74 | 0.83 | 0.78 | 0.75 | 0.00 | 0.89 | 0.70 | 0.77 | 0.90 |\n| capillary endothelial cell | 13781 | 0.75 | 0.78 | 0.66 | 0.66 | 0.00 | 0.84 | 0.71 | 0.77 | 0.85 |\n| cardiac endothelial cell | 9121 | 0.97 | 0.96 | 0.67 | 0.61 | 0.00 | 0.98 | 0.95 | 0.95 | 0.98 |\n| vein endothelial cell | 4240 | 0.49 | 0.41 | 0.50 | 0.35 | 0.00 | 0.66 | 0.51 | 0.54 | 0.68 |\n| endothelial cell of artery | 3104 | 0.64 | 0.69 | 0.55 | 0.45 | 0.00 | 0.70 | 0.59 | 0.67 | 0.76 |\n| endothelial cell of lymphatic vessel | 2174 | 0.64 | 0.67 | 0.62 | 0.66 | 0.00 | 0.78 | 0.64 | 0.69 | 0.75 |\n| retinal blood vessel endothelial cell | 1867 | 0.50 | 0.15 | 0.29 | 0.21 | 0.00 | 0.96 | 0.58 | 0.66 | 0.82 |\n| endothelial cell of vascular tree | 780 | 0.36 | 0.63 | 0.18 | 0.59 | 0.00 | 0.72 | 0.48 | 0.64 | 0.78 |\n| colon endothelial cell | 299 | 0.42 | 0.24 | 0.41 | 0.15 | 0.00 | 0.96 | 0.38 | 0.46 | 0.84 |\n| endothelial cell of arteriole | 106 | 0.00 | 0.31 | 0.27 | 0.02 | 0.00 | 0.97 | 0.24 | 0.55 | 0.92 |\n| endothelial cell of venule | 38 | 0.00 | 0.00 | 0.14 | 0.10 | 0.00 | 0.58 | 0.24 | 0.70 | 0.71 |"
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