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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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| fibroblast | 2668 | 0.87 | 0.91 | 0.95 | 0.94 | 0.00 | 0.91 | 0.88 | 0.91 | 0.93 |\n| macrophage | 1557 | 0.92 | 0.93 | 0.95 | 0.94 | 0.00 | 0.86 | 0.92 | 0.92 | 0.94 |\n| B cell | 1451 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 1116 | 0.89 | 0.90 | 0.89 | 0.88 | 0.00 | 0.87 | 0.83 | 0.87 | 0.90 |\n| endothelial cell | 627 | 0.96 | 0.97 | 0.97 | 0.97 | 0.00 | 0.95 | 0.97 | 0.97 | 0.97 |\n| CD8-positive, alpha-beta T cell | 535 | 0.73 | 0.77 | 0.76 | 0.70 | 0.00 | 0.73 | 0.72 | 0.76 | 0.79 |\n| mesenchymal stem cell of adipose tissue | 406 | 0.47 | 0.11 | 0.64 | 0.58 | 0.00 | 0.57 | 0.49 | 0.57 | 0.63 |\n| neutrophil | 293 | 0.96 | 0.96 | 0.97 | 0.97 | 0.00 | 0.96 | 0.97 | 0.95 | 0.97 |\n| smooth muscle cell | 213 | 0.83 | 0.86 | 0.91 | 0.82 | 0.00 | 0.87 | 0.88 | 0.89 | 0.90 |\n| myofibroblast cell | 128 | 0.81 | 0.81 | 0.88 | 0.78 | 0.00 | 0.81 | 0.90 | 0.88 | 0.90 |\n| natural killer cell | 71 | 0.81 | 0.81 | 0.85 | 0.77 | 0.00 | 0.75 | 0.77 | 0.79 | 0.84 |\n| pericyte | 96 | 0.89 | 0.59 | 0.92 | 0.89 | 0.00 | 0.74 | 0.82 | 0.85 | 0.91 |\n| monocyte | 83 | 0.66 | 0.75 | 0.79 | 0.73 | 0.00 | 0.57 | 0.70 | 0.69 | 0.78 |\n| mature NK T cell | 45 | 0.77 | 0.76 | 0.79 | 0.43 | 0.00 | 0.73 | 0.68 | 0.67 | 0.80 |\n| T cell | 32 | 0.33 | 0.38 | 0.53 | 0.51 | 0.00 | 0.29 | 0.26 | 0.30 | 0.44 |\n| plasma cell | 36 | 0.69 | 0.93 | 0.85 | 0.85 | 0.00 | 0.71 | 0.94 | 0.83 | 0.95 |\n| erythrocyte | 27 | 0.98 | 1.00 | 0.94 | 0.92 | 0.00 | 0.91 | 0.98 | 0.95 | 0.98 |\n| muscle cell | 22 | 0.96 | 0.90 | 1.00 | 0.98 | 0.00 | 0.94 | 0.96 | 0.94 | 0.96 |\n| leukocyte | 16 | 0.74 | 0.71 | 0.65 | 0.48 | 0.00 | 0.69 | 0.56 | 0.50 | 0.76 |\n| mast cell | 8 | 0.80 | 0.94 | 1.00 | 0.94 | 0.00 | 0.36 | 0.94 | 0.84 | 0.89 |\n| hematopoietic precursor cell | 6 | 0.00 | 0.00 | 0.50 | 0.67 | 0.00 | 0.16 | 0.56 | 0.44 | 0.59 |\n| intermediate monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| mesenchymal stem cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 1.00 | 0.00 | 0.00 |\n| myeloid dendritic cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| activated CD4-positive, alpha-beta T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| platelet | 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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| fibroblast | 23301 | 0.88 | 0.91 | 0.97 | 0.97 | 0.00 | 0.92 | 0.89 | 0.92 | 0.95 |\n| macrophage | 13696 | 0.92 | 0.93 | 0.97 | 0.96 | 0.00 | 0.87 | 0.92 | 0.92 | 0.95 |\n| B cell | 13318 | 0.99 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 10365 | 0.89 | 0.89 | 0.93 | 0.91 | 0.00 | 0.88 | 0.87 | 0.89 | 0.92 |\n| endothelial cell | 6339 | 0.97 | 0.98 | 0.99 | 0.98 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |\n| CD8-positive, alpha-beta T cell | 4667 | 0.73 | 0.76 | 0.84 | 0.78 | 0.00 | 0.75 | 0.75 | 0.79 | 0.80 |\n| mesenchymal stem cell of adipose tissue | 3371 | 0.47 | 0.08 | 0.78 | 0.76 | 0.00 | 0.60 | 0.52 | 0.60 | 0.69 |\n| neutrophil | 3086 | 0.97 | 0.97 | 0.98 | 0.98 | 0.00 | 0.98 | 0.97 | 0.96 | 0.98 |\n| smooth muscle cell | 1747 | 0.86 | 0.85 | 0.97 | 0.92 | 0.00 | 0.93 | 0.91 | 0.93 | 0.96 |\n| myofibroblast cell | 938 | 0.81 | 0.78 | 0.96 | 0.87 | 0.00 | 0.88 | 0.91 | 0.90 | 0.94 |\n| natural killer cell | 802 | 0.83 | 0.85 | 0.89 | 0.85 | 0.00 | 0.85 | 0.88 | 0.91 | 0.91 |\n| pericyte | 768 | 0.90 | 0.45 | 0.95 | 0.93 | 0.00 | 0.76 | 0.84 | 0.87 | 0.94 |\n| monocyte | 758 | 0.65 | 0.75 | 0.85 | 0.82 | 0.00 | 0.59 | 0.72 | 0.72 | 0.79 |\n| mature NK T cell | 333 | 0.74 | 0.74 | 0.82 | 0.61 | 0.00 | 0.79 | 0.79 | 0.83 | 0.88 |\n| T cell | 299 | 0.38 | 0.28 | 0.63 | 0.57 | 0.00 | 0.37 | 0.40 | 0.44 | 0.55 |\n| plasma cell | 277 | 0.74 | 0.90 | 0.96 | 0.94 | 0.00 | 0.75 | 0.96 | 0.87 | 0.95 |\n| erythrocyte | 255 | 0.98 | 0.93 | 0.98 | 0.95 | 0.00 | 0.94 | 0.99 | 0.96 | 0.98 |\n| muscle cell | 241 | 0.98 | 0.59 | 1.00 | 0.99 | 0.00 | 0.97 | 0.99 | 0.97 | 0.99 |\n| leukocyte | 152 | 0.77 | 0.70 | 0.80 | 0.55 | 0.00 | 0.67 | 0.73 | 0.65 | 0.86 |\n| mast cell | 127 | 0.81 | 0.91 | 0.98 | 0.93 | 0.00 | 0.54 | 0.98 | 0.89 | 0.93 |\n| hematopoietic precursor cell | 68 | 0.28 | 0.00 | 0.82 | 0.79 | 0.00 | 0.27 | 0.76 | 0.63 | 0.78 |\n| intermediate monocyte | 42 | 0.00 | 0.00 | 0.19 | 0.26 | 0.00 | 0.14 | 0.56 | 0.63 | 0.78 |\n| mesenchymal stem cell | 16 | 0.00 | 0.00 | 0.67 | 0.22 | 0.00 | 0.23 | 0.78 | 0.84 | 0.86 |\n| myeloid dendritic cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 1.00 | 0.75 | 0.50 |\n| classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 1.00 | 1.00 | 0.00 |\n| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 1.00 | 1.00 | 1.00 |\n| activated CD4-positive, alpha-beta T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.29 | 1.00 | 1.00 | 0.00 |\n| platelet | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 |"
+    "query_accuracy": "| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| fibroblast | 2663 | 0.90 | 0.91 | 0.96 | 0.94 | 0.00 | 0.88 | 0.87 | 0.90 | 0.94 |\n| macrophage | 1541 | 0.91 | 0.93 | 0.95 | 0.94 | 0.00 | 0.89 | 0.91 | 0.92 | 0.94 |\n| B cell | 1469 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 1128 | 0.88 | 0.89 | 0.88 | 0.87 | 0.00 | 0.83 | 0.85 | 0.87 | 0.90 |\n| endothelial cell | 623 | 0.95 | 0.97 | 0.98 | 0.96 | 0.00 | 0.95 | 0.97 | 0.97 | 0.98 |\n| CD8-positive, alpha-beta T cell | 529 | 0.72 | 0.75 | 0.75 | 0.68 | 0.00 | 0.72 | 0.75 | 0.76 | 0.78 |\n| mesenchymal stem cell of adipose tissue | 404 | 0.51 | 0.10 | 0.68 | 0.58 | 0.00 | 0.54 | 0.48 | 0.54 | 0.64 |\n| neutrophil | 303 | 0.96 | 0.96 | 0.98 | 0.96 | 0.00 | 0.96 | 0.97 | 0.95 | 0.97 |\n| smooth muscle cell | 211 | 0.84 | 0.86 | 0.91 | 0.85 | 0.00 | 0.85 | 0.86 | 0.88 | 0.90 |\n| myofibroblast cell | 133 | 0.80 | 0.82 | 0.88 | 0.80 | 0.00 | 0.82 | 0.87 | 0.89 | 0.88 |\n| natural killer cell | 69 | 0.80 | 0.81 | 0.80 | 0.77 | 0.00 | 0.74 | 0.77 | 0.81 | 0.82 |\n| pericyte | 92 | 0.88 | 0.57 | 0.93 | 0.87 | 0.00 | 0.71 | 0.79 | 0.86 | 0.90 |\n| monocyte | 85 | 0.61 | 0.72 | 0.75 | 0.68 | 0.00 | 0.71 | 0.70 | 0.70 | 0.77 |\n| mature NK T cell | 42 | 0.72 | 0.72 | 0.70 | 0.45 | 0.00 | 0.69 | 0.68 | 0.73 | 0.77 |\n| T cell | 28 | 0.37 | 0.40 | 0.51 | 0.52 | 0.00 | 0.20 | 0.22 | 0.23 | 0.44 |\n| plasma cell | 37 | 0.71 | 0.92 | 0.90 | 0.87 | 0.00 | 0.86 | 0.96 | 0.80 | 0.92 |\n| erythrocyte | 24 | 0.98 | 0.98 | 0.94 | 0.84 | 0.00 | 0.88 | 0.98 | 0.94 | 0.96 |\n| muscle cell | 25 | 0.96 | 0.75 | 1.00 | 0.96 | 0.00 | 0.92 | 0.96 | 0.94 | 0.96 |\n| leukocyte | 15 | 0.67 | 0.67 | 0.62 | 0.38 | 0.00 | 0.43 | 0.55 | 0.53 | 0.70 |\n| mast cell | 7 | 0.70 | 0.82 | 1.00 | 0.93 | 0.00 | 0.74 | 0.93 | 0.70 | 0.82 |\n| hematopoietic precursor cell | 9 | 0.10 | 0.00 | 0.80 | 0.59 | 0.00 | 0.40 | 0.64 | 0.61 | 0.67 |\n| intermediate monocyte | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.00 | 0.00 |\n| mesenchymal stem cell | 1 | 0.00 | 0.00 | 0.00 | 1.00 | 0.00 | 0.02 | 1.00 | 0.00 | 1.00 |\n| myeloid dendritic cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| activated CD4-positive, alpha-beta T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| platelet | 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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| fibroblast | 23306 | 0.90 | 0.91 | 0.97 | 0.97 | 0.00 | 0.90 | 0.88 | 0.92 | 0.95 |\n| macrophage | 13712 | 0.91 | 0.93 | 0.97 | 0.96 | 0.00 | 0.90 | 0.93 | 0.92 | 0.95 |\n| B cell | 13300 | 0.99 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 10353 | 0.89 | 0.90 | 0.92 | 0.91 | 0.00 | 0.85 | 0.87 | 0.89 | 0.92 |\n| endothelial cell | 6343 | 0.96 | 0.98 | 0.99 | 0.98 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |\n| CD8-positive, alpha-beta T cell | 4673 | 0.73 | 0.76 | 0.83 | 0.79 | 0.00 | 0.74 | 0.76 | 0.79 | 0.81 |\n| mesenchymal stem cell of adipose tissue | 3373 | 0.50 | 0.08 | 0.78 | 0.74 | 0.00 | 0.56 | 0.50 | 0.59 | 0.69 |\n| neutrophil | 3076 | 0.97 | 0.97 | 0.99 | 0.98 | 0.00 | 0.97 | 0.97 | 0.97 | 0.98 |\n| smooth muscle cell | 1749 | 0.84 | 0.85 | 0.97 | 0.92 | 0.00 | 0.93 | 0.92 | 0.93 | 0.96 |\n| myofibroblast cell | 933 | 0.79 | 0.78 | 0.96 | 0.88 | 0.00 | 0.93 | 0.92 | 0.91 | 0.94 |\n| natural killer cell | 804 | 0.84 | 0.84 | 0.89 | 0.85 | 0.00 | 0.81 | 0.88 | 0.90 | 0.90 |\n| pericyte | 772 | 0.89 | 0.44 | 0.95 | 0.92 | 0.00 | 0.75 | 0.85 | 0.87 | 0.94 |\n| monocyte | 756 | 0.62 | 0.75 | 0.86 | 0.82 | 0.00 | 0.72 | 0.74 | 0.72 | 0.80 |\n| mature NK T cell | 336 | 0.72 | 0.75 | 0.80 | 0.47 | 0.00 | 0.73 | 0.82 | 0.86 | 0.88 |\n| T cell | 303 | 0.42 | 0.27 | 0.63 | 0.60 | 0.00 | 0.29 | 0.40 | 0.44 | 0.59 |\n| plasma cell | 276 | 0.74 | 0.89 | 0.96 | 0.95 | 0.00 | 0.82 | 0.97 | 0.83 | 0.95 |\n| erythrocyte | 258 | 0.98 | 0.94 | 0.97 | 0.95 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |\n| muscle cell | 238 | 0.98 | 0.50 | 1.00 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| leukocyte | 153 | 0.69 | 0.72 | 0.81 | 0.58 | 0.00 | 0.70 | 0.76 | 0.68 | 0.85 |\n| mast cell | 128 | 0.81 | 0.90 | 0.98 | 0.96 | 0.00 | 0.87 | 0.98 | 0.89 | 0.94 |\n| hematopoietic precursor cell | 65 | 0.35 | 0.00 | 0.78 | 0.70 | 0.00 | 0.49 | 0.74 | 0.71 | 0.80 |\n| intermediate monocyte | 41 | 0.00 | 0.00 | 0.23 | 0.19 | 0.00 | 0.16 | 0.54 | 0.78 | 0.79 |\n| mesenchymal stem cell | 16 | 0.00 | 0.00 | 0.61 | 0.40 | 0.00 | 0.05 | 0.94 | 0.82 | 0.67 |\n| myeloid dendritic cell | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 1.00 | 1.00 | 0.86 |\n| classical monocyte | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.13 | 1.00 | 1.00 | 0.67 |\n| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 1.00 | 1.00 | 1.00 |\n| activated CD4-positive, alpha-beta T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 1.00 | 1.00 | 0.00 |\n| platelet | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 1.00 | 1.00 | 0.00 |"
 }

celltypist.pkl

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harmony_knn_classifier.joblib

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preprocessing.json

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         "ENSG00000085382",
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         "ENSG00000260572",
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