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@@ -33,3 +33,5 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.zip filter=lfs diff=lfs merge=lfs -text
 *.zst filter=lfs diff=lfs merge=lfs -text
 *tfevents* filter=lfs diff=lfs merge=lfs -text
+OnClass.data-00000-of-00001 filter=lfs diff=lfs merge=lfs -text
+faiss_index.faiss filter=lfs diff=lfs merge=lfs -text

OnClass.data-00000-of-00001

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OnClass.npz

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accuracies.json

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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| basal cell | 1038 | 0.98 | 0.98 | 0.98 | 0.99 | 0.00 | 0.90 | 0.97 | 0.97 | 0.99 |\n| neutrophil | 479 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.94 | 0.99 | 0.99 | 0.99 |\n| fibroblast | 174 | 0.98 | 0.96 | 0.97 | 0.99 | 0.00 | 0.92 | 0.97 | 0.98 | 0.98 |\n| CD8-positive, alpha-beta T cell | 124 | 0.92 | 0.92 | 0.94 | 0.84 | 0.00 | 0.95 | 0.95 | 0.93 | 0.95 |\n| ciliated columnar cell of tracheobronchial tree | 63 | 0.95 | 0.92 | 0.93 | 0.98 | 0.00 | 0.77 | 0.92 | 0.92 | 0.94 |\n| macrophage | 68 | 0.96 | 0.96 | 0.96 | 0.94 | 0.00 | 0.93 | 0.98 | 0.93 | 0.98 |\n| B cell | 62 | 0.96 | 0.96 | 0.98 | 0.97 | 0.00 | 0.98 | 1.00 | 1.00 | 0.98 |\n| endothelial cell | 53 | 0.97 | 0.97 | 0.99 | 0.99 | 0.00 | 0.94 | 1.00 | 1.00 | 1.00 |\n| serous cell of epithelium of trachea | 26 | 0.48 | 0.27 | 0.70 | 0.69 | 0.00 | 0.36 | 0.51 | 0.56 | 0.71 |\n| plasma cell | 20 | 0.95 | 0.93 | 0.98 | 1.00 | 0.00 | 0.93 | 0.93 | 0.95 | 0.98 |\n| CD4-positive, alpha-beta T cell | 29 | 0.79 | 0.72 | 0.77 | 0.20 | 0.00 | 0.79 | 0.86 | 0.83 | 0.85 |\n| mucus secreting cell | 31 | 0.72 | 0.80 | 0.83 | 0.83 | 0.00 | 0.71 | 0.77 | 0.82 | 0.86 |\n| tracheal goblet cell | 32 | 0.74 | 0.65 | 0.86 | 0.89 | 0.00 | 0.74 | 0.84 | 0.79 | 0.92 |\n| connective tissue cell | 8 | 0.94 | 0.00 | 0.89 | 1.00 | 0.00 | 0.80 | 0.94 | 0.94 | 1.00 |\n| smooth muscle cell | 17 | 0.84 | 0.79 | 0.89 | 0.91 | 0.00 | 0.85 | 0.84 | 0.91 | 0.84 |\n| mast cell | 13 | 0.96 | 0.96 | 0.96 | 0.96 | 0.00 | 0.96 | 1.00 | 1.00 | 0.96 |\n| monocyte | 7 | 0.80 | 0.77 | 0.67 | 0.67 | 0.00 | 0.57 | 0.82 | 0.77 | 0.80 |\n| natural killer cell | 7 | 0.58 | 0.71 | 0.73 | 0.53 | 0.00 | 0.74 | 0.82 | 0.78 | 0.82 |\n| granulocyte | 4 | 0.00 | 0.00 | 0.40 | 0.00 | 0.00 | 0.11 | 0.00 | 0.29 | 0.00 |\n| mature NK T cell | 5 | 0.29 | 0.00 | 0.67 | 0.33 | 0.00 | 0.75 | 0.91 | 1.00 | 1.00 |\n| T cell | 2 | 0.00 | 0.67 | 1.00 | 0.00 | 0.00 | 0.12 | 0.00 | 0.00 | 0.00 |\n| ionocyte | 2 | 0.80 | 0.00 | 0.50 | 0.67 | 0.00 | 0.20 | 1.00 | 1.00 | 1.00 |\n| regulatory T cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| intermediate monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| innate lymphoid cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| plasmacytoid dendritic cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| myeloid dendritic cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |",
+    "ref_accuracy": "| Cell Type | N cells |  celltypist |  knn on bbknn |  knn on harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| basal cell | 9209 | 0.98 | 0.98 | 0.99 | 0.99 | 0.00 | 0.94 | 0.98 | 0.98 | 0.99 |\n| neutrophil | 4205 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.96 | 0.99 | 0.99 | 1.00 |\n| fibroblast | 1626 | 0.96 | 0.93 | 0.97 | 0.98 | 0.00 | 0.94 | 0.98 | 0.99 | 0.98 |\n| CD8-positive, alpha-beta T cell | 1078 | 0.89 | 0.91 | 0.94 | 0.88 | 0.00 | 0.95 | 0.97 | 0.98 | 0.96 |\n| ciliated columnar cell of tracheobronchial tree | 650 | 0.96 | 0.97 | 0.96 | 0.98 | 0.00 | 0.87 | 0.98 | 0.97 | 0.99 |\n| macrophage | 644 | 0.92 | 0.92 | 0.94 | 0.92 | 0.00 | 0.95 | 0.98 | 0.99 | 0.96 |\n| B cell | 565 | 0.97 | 0.96 | 0.97 | 0.97 | 0.00 | 0.98 | 1.00 | 1.00 | 0.99 |\n| endothelial cell | 533 | 0.96 | 0.97 | 0.98 | 0.99 | 0.00 | 0.94 | 0.99 | 0.98 | 0.99 |\n| serous cell of epithelium of trachea | 300 | 0.67 | 0.02 | 0.88 | 0.88 | 0.00 | 0.67 | 0.78 | 0.80 | 0.92 |\n| plasma cell | 272 | 0.98 | 0.97 | 0.99 | 0.96 | 0.00 | 0.98 | 1.00 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 249 | 0.72 | 0.67 | 0.78 | 0.44 | 0.00 | 0.86 | 0.94 | 0.96 | 0.85 |\n| mucus secreting cell | 239 | 0.71 | 0.73 | 0.87 | 0.88 | 0.00 | 0.75 | 0.87 | 0.90 | 0.92 |\n| tracheal goblet cell | 200 | 0.73 | 0.50 | 0.88 | 0.88 | 0.00 | 0.79 | 0.86 | 0.82 | 0.96 |\n| connective tissue cell | 144 | 0.81 | 0.00 | 0.90 | 0.96 | 0.00 | 0.96 | 0.97 | 0.97 | 0.98 |\n| smooth muscle cell | 114 | 0.79 | 0.74 | 0.86 | 0.90 | 0.00 | 0.80 | 0.91 | 0.90 | 0.88 |\n| mast cell | 106 | 0.96 | 0.96 | 0.96 | 0.99 | 0.00 | 0.95 | 1.00 | 1.00 | 1.00 |\n| monocyte | 74 | 0.57 | 0.48 | 0.73 | 0.50 | 0.00 | 0.76 | 0.95 | 0.99 | 0.82 |\n| natural killer cell | 57 | 0.53 | 0.47 | 0.67 | 0.55 | 0.00 | 0.81 | 0.84 | 0.83 | 0.89 |\n| granulocyte | 35 | 0.00 | 0.00 | 0.36 | 0.36 | 0.00 | 0.17 | 0.72 | 0.69 | 0.48 |\n| mature NK T cell | 32 | 0.31 | 0.06 | 0.67 | 0.39 | 0.00 | 0.69 | 0.91 | 0.94 | 0.84 |\n| T cell | 17 | 0.00 | 0.00 | 0.48 | 0.00 | 0.00 | 0.27 | 1.00 | 0.92 | 0.87 |\n| ionocyte | 16 | 0.42 | 0.00 | 0.83 | 0.69 | 0.00 | 0.43 | 1.00 | 0.89 | 1.00 |\n| regulatory T cell | 14 | 0.00 | 0.00 | 0.32 | 0.24 | 0.00 | 0.43 | 1.00 | 1.00 | 0.67 |\n| intermediate monocyte | 16 | 0.00 | 0.00 | 0.47 | 0.23 | 0.00 | 0.67 | 0.97 | 0.97 | 0.81 |\n| non-classical monocyte | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.75 | 1.00 | 1.00 | 0.00 |\n| innate lymphoid cell | 2 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.67 | 0.80 | 1.00 | 1.00 |\n| plasmacytoid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.33 | 1.00 | 1.00 | 1.00 |\n| myeloid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 1.00 | 1.00 |"
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celltypist.pkl

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checkpoint

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obo_dag.joblib

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scanvi/model.pt

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scvi/model.pt

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