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popV
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tabula_muris_Large_intestine_10x

Joblib
popV
biology
genomics
single-cell
AnnData:0.12.2
scikit_learn:1.7.2
organism:Mus musculus
Python:3.12.8
popV:0.6.0
tissue: large intestine
Model card Files
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canergen commited on
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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 +2 -2
  5. accuracies.json +2 -2
  6. celltypist.pkl +2 -2
  7. harmony_knn_classifier.joblib +2 -2
  8. popv_output/predictions.csv +0 -0
  9. preprocessing.json +0 -0
  10. pynndescent_index.joblib +2 -2
  11. scanvi/model.pt +1 -1
  12. scvi/model.pt +1 -1
  13. scvi_knn_classifier.joblib +2 -2
  14. svm_classifier.joblib +3 -0
  15. svm_classifier_cuml.joblib +2 -2
  16. xgboost_classifier.model +2 -2
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accuracies.json CHANGED
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- "query_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| enterocyte of epithelium of large intestine | 244 | 0.95 | 0.97 | 0.97 | 0.96 | 0.00 | 0.96 | 0.95 | 0.95 | 0.97 |\n| epithelial cell of large intestine | 185 | 0.94 | 0.97 | 0.96 | 0.94 | 0.00 | 0.94 | 0.95 | 0.94 | 0.97 |\n| large intestine goblet cell | 160 | 0.96 | 0.96 | 0.94 | 0.87 | 0.00 | 0.92 | 0.93 | 0.94 | 0.96 |\n| intestinal crypt stem cell | 144 | 0.93 | 0.96 | 0.95 | 0.92 | 0.00 | 0.93 | 0.93 | 0.92 | 0.95 |\n| secretory cell | 68 | 0.94 | 0.93 | 0.86 | 0.73 | 0.00 | 0.86 | 0.93 | 0.94 | 0.94 |\n| brush cell of epithelium proper of large intestine | 14 | 1.00 | 1.00 | 0.96 | 0.93 | 0.00 | 1.00 | 1.00 | 0.93 | 1.00 |\n| enteroendocrine cell | 17 | 0.97 | 0.94 | 0.97 | 0.94 | 0.00 | 0.81 | 1.00 | 0.94 | 1.00 |",
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- "ref_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| enterocyte of epithelium of large intestine | 2298 | 0.95 | 0.97 | 0.97 | 0.97 | 0.00 | 0.95 | 0.97 | 0.96 | 0.97 |\n| epithelial cell of large intestine | 1519 | 0.95 | 0.97 | 0.97 | 0.96 | 0.00 | 0.93 | 0.97 | 0.96 | 0.98 |\n| large intestine goblet cell | 1427 | 0.95 | 0.95 | 0.94 | 0.91 | 0.00 | 0.92 | 0.96 | 0.96 | 0.98 |\n| intestinal crypt stem cell | 1435 | 0.93 | 0.96 | 0.96 | 0.95 | 0.00 | 0.91 | 0.95 | 0.95 | 0.97 |\n| secretory cell | 495 | 0.90 | 0.88 | 0.85 | 0.79 | 0.00 | 0.84 | 0.93 | 0.94 | 0.96 |\n| brush cell of epithelium proper of large intestine | 161 | 0.97 | 0.98 | 0.99 | 0.85 | 0.00 | 0.97 | 0.98 | 0.98 | 0.98 |\n| enteroendocrine cell | 144 | 0.97 | 0.95 | 0.99 | 0.80 | 0.00 | 0.90 | 1.00 | 0.99 | 1.00 |"
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+ "query_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| enterocyte of epithelium of large intestine | 245 | 0.94 | 0.98 | 0.97 | 0.96 | 0.00 | 0.96 | 0.96 | 0.96 | 0.98 |\n| epithelial cell of large intestine | 183 | 0.96 | 0.98 | 0.97 | 0.95 | 0.00 | 0.94 | 0.96 | 0.96 | 0.98 |\n| large intestine goblet cell | 149 | 0.96 | 0.95 | 0.94 | 0.85 | 0.00 | 0.87 | 0.92 | 0.93 | 0.95 |\n| intestinal crypt stem cell | 159 | 0.95 | 0.96 | 0.96 | 0.94 | 0.00 | 0.95 | 0.94 | 0.95 | 0.97 |\n| secretory cell | 60 | 0.92 | 0.90 | 0.84 | 0.64 | 0.00 | 0.78 | 0.86 | 0.88 | 0.89 |\n| brush cell of epithelium proper of large intestine | 17 | 1.00 | 1.00 | 1.00 | 0.97 | 0.00 | 0.97 | 1.00 | 0.89 | 1.00 |\n| enteroendocrine cell | 19 | 0.97 | 0.94 | 0.97 | 0.92 | 0.00 | 0.93 | 1.00 | 0.97 | 0.97 |",
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+ "ref_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| enterocyte of epithelium of large intestine | 2297 | 0.95 | 0.97 | 0.97 | 0.96 | 0.00 | 0.96 | 0.96 | 0.96 | 0.97 |\n| epithelial cell of large intestine | 1521 | 0.94 | 0.96 | 0.97 | 0.95 | 0.00 | 0.94 | 0.97 | 0.97 | 0.97 |\n| large intestine goblet cell | 1438 | 0.96 | 0.94 | 0.94 | 0.92 | 0.00 | 0.89 | 0.96 | 0.97 | 0.98 |\n| intestinal crypt stem cell | 1420 | 0.94 | 0.95 | 0.96 | 0.93 | 0.00 | 0.94 | 0.95 | 0.95 | 0.97 |\n| secretory cell | 503 | 0.92 | 0.88 | 0.84 | 0.81 | 0.00 | 0.82 | 0.94 | 0.95 | 0.97 |\n| brush cell of epithelium proper of large intestine | 158 | 0.98 | 0.98 | 0.99 | 0.88 | 0.00 | 0.96 | 0.98 | 0.98 | 0.98 |\n| enteroendocrine cell | 142 | 0.99 | 0.94 | 0.99 | 0.84 | 0.00 | 0.92 | 0.99 | 0.97 | 1.00 |"
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