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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| acinar cell of salivary gland | 1205 | 0.95 | 0.93 | 0.97 | 0.95 | 0.00 | 0.92 | 0.96 | 0.96 | 0.97 |\n| B cell | 518 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| fibroblast | 466 | 0.97 | 0.94 | 0.97 | 0.95 | 0.00 | 0.96 | 0.95 | 0.95 | 0.98 |\n| CD8-positive, alpha-beta T cell | 384 | 0.91 | 0.88 | 0.93 | 0.89 | 0.00 | 0.92 | 0.88 | 0.89 | 0.93 |\n| duct epithelial cell | 381 | 0.85 | 0.76 | 0.92 | 0.82 | 0.00 | 0.80 | 0.86 | 0.90 | 0.90 |\n| CD4-positive, alpha-beta T cell | 166 | 0.87 | 0.86 | 0.87 | 0.81 | 0.00 | 0.87 | 0.86 | 0.88 | 0.90 |\n| endothelial cell | 159 | 0.94 | 0.91 | 0.92 | 0.86 | 0.00 | 0.92 | 0.94 | 0.94 | 0.95 |\n| macrophage | 176 | 0.91 | 0.72 | 0.92 | 0.91 | 0.00 | 0.91 | 0.94 | 0.95 | 0.96 |\n| basal cell | 117 | 0.91 | 0.92 | 0.93 | 0.87 | 0.00 | 0.88 | 0.89 | 0.89 | 0.90 |\n| tissue-resident macrophage | 82 | 0.92 | 0.00 | 0.92 | 0.87 | 0.00 | 0.89 | 0.89 | 0.91 | 0.96 |\n| plasma cell | 50 | 0.94 | 0.96 | 0.98 | 0.98 | 0.00 | 0.98 | 0.96 | 0.96 | 0.98 |\n| endothelial cell of lymphatic vessel | 51 | 0.87 | 0.74 | 0.87 | 0.65 | 0.00 | 0.88 | 0.86 | 0.89 | 0.92 |\n| adventitial cell | 56 | 0.86 | 0.26 | 0.77 | 0.67 | 0.00 | 0.79 | 0.73 | 0.71 | 0.84 |\n| vascular associated smooth muscle cell | 42 | 0.98 | 0.98 | 0.96 | 0.96 | 0.00 | 0.94 | 0.98 | 0.97 | 0.97 |\n| neutrophil | 24 | 0.92 | 0.92 | 0.96 | 0.87 | 0.00 | 0.96 | 0.98 | 0.87 | 0.96 |\n| myoepithelial cell | 12 | 0.89 | 0.71 | 0.81 | 0.92 | 0.00 | 0.53 | 0.80 | 0.76 | 0.83 |\n| T cell | 19 | 0.53 | 0.10 | 0.44 | 0.51 | 0.00 | 0.57 | 0.50 | 0.43 | 0.59 |\n| ionocyte | 18 | 0.85 | 0.85 | 0.81 | 0.50 | 0.00 | 0.85 | 0.86 | 0.86 | 0.85 |\n| endothelial cell of artery | 10 | 0.75 | 0.74 | 0.71 | 0.31 | 0.00 | 0.69 | 0.91 | 0.82 | 0.82 |\n| monocyte | 11 | 0.49 | 0.75 | 0.62 | 0.55 | 0.00 | 0.65 | 0.53 | 0.63 | 0.63 |\n| natural killer cell | 10 | 0.55 | 0.53 | 0.71 | 0.29 | 0.00 | 0.64 | 0.46 | 0.52 | 0.57 |\n| mast cell | 5 | 0.00 | 0.77 | 0.60 | 0.75 | 0.00 | 0.77 | 0.67 | 0.67 | 1.00 |\n| classical monocyte | 8 | 0.00 | 0.00 | 0.33 | 0.27 | 0.00 | 0.31 | 0.15 | 0.00 | 0.00 |\n| intermediate monocyte | 7 | 0.00 | 0.00 | 0.33 | 0.18 | 0.00 | 0.30 | 0.20 | 0.25 | 0.22 |\n| mature NK T cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.57 | 0.40 | 0.00 | 0.00 |\n| leukocyte | 2 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.80 | 0.67 | 0.00 | 0.00 |\n| pericyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| salivary gland 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 |\n| non-classical monocyte | 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| acinar cell of salivary gland | 11032 | 0.95 | 0.93 | 0.98 | 0.97 | 0.00 | 0.94 | 0.96 | 0.97 | 0.98 |\n| B cell | 4430 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| fibroblast | 4001 | 0.97 | 0.93 | 0.98 | 0.97 | 0.00 | 0.96 | 0.96 | 0.97 | 0.99 |\n| CD8-positive, alpha-beta T cell | 3681 | 0.91 | 0.86 | 0.94 | 0.93 | 0.00 | 0.92 | 0.91 | 0.91 | 0.94 |\n| duct epithelial cell | 3508 | 0.85 | 0.75 | 0.95 | 0.90 | 0.00 | 0.83 | 0.87 | 0.90 | 0.92 |\n| CD4-positive, alpha-beta T cell | 1720 | 0.87 | 0.86 | 0.91 | 0.88 | 0.00 | 0.89 | 0.89 | 0.89 | 0.91 |\n| endothelial cell | 1470 | 0.94 | 0.88 | 0.96 | 0.94 | 0.00 | 0.96 | 0.97 | 0.98 | 0.98 |\n| macrophage | 1447 | 0.91 | 0.71 | 0.96 | 0.95 | 0.00 | 0.96 | 0.97 | 0.97 | 0.97 |\n| basal cell | 1065 | 0.91 | 0.92 | 0.97 | 0.93 | 0.00 | 0.91 | 0.94 | 0.95 | 0.96 |\n| tissue-resident macrophage | 572 | 0.87 | 0.00 | 0.93 | 0.93 | 0.00 | 0.94 | 0.88 | 0.90 | 0.95 |\n| plasma cell | 533 | 0.94 | 0.96 | 0.99 | 0.98 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| endothelial cell of lymphatic vessel | 495 | 0.89 | 0.65 | 0.94 | 0.86 | 0.00 | 0.93 | 0.95 | 0.97 | 0.97 |\n| adventitial cell | 404 | 0.82 | 0.24 | 0.86 | 0.77 | 0.00 | 0.79 | 0.80 | 0.83 | 0.95 |\n| vascular associated smooth muscle cell | 361 | 0.96 | 0.97 | 0.96 | 0.98 | 0.00 | 0.95 | 0.97 | 0.98 | 0.97 |\n| neutrophil | 219 | 0.93 | 0.92 | 0.98 | 0.93 | 0.00 | 0.93 | 0.98 | 0.96 | 0.97 |\n| myoepithelial cell | 204 | 0.92 | 0.89 | 0.95 | 0.94 | 0.00 | 0.71 | 0.93 | 0.91 | 0.94 |\n| T cell | 174 | 0.67 | 0.24 | 0.75 | 0.76 | 0.00 | 0.75 | 0.79 | 0.80 | 0.84 |\n| ionocyte | 124 | 0.91 | 0.86 | 0.94 | 0.68 | 0.00 | 0.79 | 0.96 | 0.91 | 0.94 |\n| endothelial cell of artery | 106 | 0.75 | 0.60 | 0.91 | 0.64 | 0.00 | 0.81 | 0.96 | 0.96 | 0.92 |\n| monocyte | 88 | 0.45 | 0.49 | 0.67 | 0.54 | 0.00 | 0.69 | 0.89 | 0.94 | 0.89 |\n| natural killer cell | 63 | 0.48 | 0.40 | 0.59 | 0.49 | 0.00 | 0.55 | 0.68 | 0.55 | 0.80 |\n| mast cell | 40 | 0.00 | 0.73 | 0.70 | 0.73 | 0.00 | 0.82 | 1.00 | 0.99 | 0.96 |\n| classical monocyte | 35 | 0.00 | 0.00 | 0.45 | 0.38 | 0.00 | 0.83 | 1.00 | 0.97 | 0.91 |\n| intermediate monocyte | 35 | 0.00 | 0.00 | 0.62 | 0.51 | 0.00 | 0.69 | 0.96 | 0.93 | 0.99 |\n| mature NK T cell | 20 | 0.00 | 0.00 | 0.10 | 0.00 | 0.00 | 0.45 | 0.83 | 0.67 | 0.62 |\n| leukocyte | 4 | 0.00 | 0.00 | 0.86 | 0.86 | 0.00 | 0.50 | 1.00 | 0.89 | 1.00 |\n| pericyte | 3 | 0.00 | 0.00 | 0.40 | 0.00 | 0.00 | 0.46 | 1.00 | 1.00 | 0.50 |\n| salivary gland cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 1.00 | 1.00 | 0.00 |\n| myeloid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.18 | 1.00 | 0.00 |\n| non-classical monocyte | 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| acinar cell of salivary gland | 1199 | 0.96 | 0.93 | 0.98 | 0.96 | 0.00 | 0.92 | 0.95 | 0.96 | 0.97 |\n| B cell | 519 | 0.99 | 1.00 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| fibroblast | 472 | 0.97 | 0.94 | 0.97 | 0.94 | 0.00 | 0.96 | 0.96 | 0.95 | 0.98 |\n| CD8-positive, alpha-beta T cell | 387 | 0.89 | 0.87 | 0.93 | 0.90 | 0.00 | 0.88 | 0.89 | 0.91 | 0.92 |\n| duct epithelial cell | 373 | 0.86 | 0.76 | 0.94 | 0.84 | 0.00 | 0.80 | 0.85 | 0.88 | 0.89 |\n| CD4-positive, alpha-beta T cell | 165 | 0.86 | 0.87 | 0.88 | 0.85 | 0.00 | 0.85 | 0.87 | 0.90 | 0.89 |\n| endothelial cell | 158 | 0.92 | 0.91 | 0.94 | 0.87 | 0.00 | 0.93 | 0.94 | 0.95 | 0.95 |\n| macrophage | 180 | 0.88 | 0.71 | 0.92 | 0.85 | 0.00 | 0.93 | 0.95 | 0.95 | 0.96 |\n| basal cell | 114 | 0.90 | 0.92 | 0.94 | 0.90 | 0.00 | 0.89 | 0.88 | 0.90 | 0.90 |\n| tissue-resident macrophage | 82 | 0.88 | 0.00 | 0.92 | 0.84 | 0.00 | 0.89 | 0.87 | 0.89 | 0.95 |\n| plasma cell | 47 | 0.87 | 0.97 | 0.99 | 0.98 | 0.00 | 0.96 | 0.96 | 0.97 | 0.97 |\n| endothelial cell of lymphatic vessel | 54 | 0.83 | 0.73 | 0.89 | 0.66 | 0.00 | 0.85 | 0.89 | 0.89 | 0.91 |\n| adventitial cell | 56 | 0.85 | 0.25 | 0.75 | 0.58 | 0.00 | 0.77 | 0.76 | 0.71 | 0.84 |\n| vascular associated smooth muscle cell | 47 | 0.98 | 0.98 | 0.98 | 0.96 | 0.00 | 0.90 | 0.98 | 0.99 | 0.98 |\n| neutrophil | 24 | 0.91 | 0.92 | 0.94 | 0.83 | 0.00 | 0.94 | 0.96 | 0.94 | 0.94 |\n| myoepithelial cell | 16 | 0.88 | 0.78 | 0.91 | 1.00 | 0.00 | 0.68 | 0.86 | 0.89 | 0.89 |\n| T cell | 19 | 0.56 | 0.10 | 0.46 | 0.46 | 0.00 | 0.44 | 0.54 | 0.53 | 0.57 |\n| ionocyte | 15 | 0.87 | 0.97 | 0.93 | 0.61 | 0.00 | 0.80 | 0.90 | 0.87 | 0.90 |\n| endothelial cell of artery | 10 | 0.75 | 0.84 | 0.78 | 0.57 | 0.00 | 0.83 | 0.80 | 0.90 | 0.80 |\n| monocyte | 11 | 0.46 | 0.52 | 0.60 | 0.35 | 0.00 | 0.57 | 0.59 | 0.55 | 0.61 |\n| natural killer cell | 10 | 0.49 | 0.57 | 0.74 | 0.00 | 0.00 | 0.43 | 0.71 | 0.57 | 0.69 |\n| mast cell | 5 | 0.00 | 0.77 | 0.60 | 0.67 | 0.00 | 0.77 | 0.67 | 0.80 | 0.67 |\n| classical monocyte | 8 | 0.00 | 0.00 | 0.50 | 0.15 | 0.00 | 0.00 | 0.18 | 0.00 | 0.00 |\n| intermediate monocyte | 7 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.13 | 0.20 | 0.36 | 0.25 |\n| mature NK T cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 0.40 | 0.00 | 0.00 |\n| leukocyte | 2 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 1.00 | 0.67 | 0.00 | 0.67 |\n| pericyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| salivary gland 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 |\n| non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| hematopoietic precursor 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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| acinar cell of salivary gland | 11038 | 0.96 | 0.92 | 0.98 | 0.98 | 0.00 | 0.93 | 0.95 | 0.96 | 0.97 |\n| B cell | 4429 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| fibroblast | 3995 | 0.97 | 0.93 | 0.98 | 0.98 | 0.00 | 0.97 | 0.96 | 0.97 | 0.99 |\n| CD8-positive, alpha-beta T cell | 3678 | 0.89 | 0.86 | 0.94 | 0.92 | 0.00 | 0.89 | 0.91 | 0.92 | 0.94 |\n| duct epithelial cell | 3516 | 0.85 | 0.74 | 0.95 | 0.91 | 0.00 | 0.83 | 0.86 | 0.88 | 0.92 |\n| CD4-positive, alpha-beta T cell | 1721 | 0.86 | 0.86 | 0.91 | 0.88 | 0.00 | 0.88 | 0.90 | 0.91 | 0.91 |\n| endothelial cell | 1471 | 0.92 | 0.88 | 0.96 | 0.95 | 0.00 | 0.96 | 0.97 | 0.97 | 0.98 |\n| macrophage | 1443 | 0.88 | 0.71 | 0.96 | 0.92 | 0.00 | 0.95 | 0.97 | 0.97 | 0.98 |\n| basal cell | 1068 | 0.91 | 0.92 | 0.96 | 0.94 | 0.00 | 0.92 | 0.94 | 0.94 | 0.95 |\n| tissue-resident macrophage | 572 | 0.83 | 0.00 | 0.94 | 0.91 | 0.00 | 0.90 | 0.88 | 0.88 | 0.95 |\n| plasma cell | 536 | 0.91 | 0.96 | 0.99 | 0.98 | 0.00 | 0.95 | 0.99 | 0.98 | 0.99 |\n| endothelial cell of lymphatic vessel | 492 | 0.84 | 0.64 | 0.95 | 0.87 | 0.00 | 0.94 | 0.94 | 0.95 | 0.97 |\n| adventitial cell | 404 | 0.84 | 0.18 | 0.88 | 0.81 | 0.00 | 0.79 | 0.80 | 0.81 | 0.93 |\n| vascular associated smooth muscle cell | 356 | 0.96 | 0.97 | 0.96 | 0.98 | 0.00 | 0.93 | 0.97 | 0.98 | 0.97 |\n| neutrophil | 219 | 0.93 | 0.93 | 0.97 | 0.90 | 0.00 | 0.91 | 0.98 | 0.97 | 0.97 |\n| myoepithelial cell | 200 | 0.92 | 0.88 | 0.95 | 0.93 | 0.00 | 0.80 | 0.92 | 0.90 | 0.94 |\n| T cell | 174 | 0.66 | 0.27 | 0.75 | 0.73 | 0.00 | 0.65 | 0.81 | 0.83 | 0.83 |\n| ionocyte | 127 | 0.86 | 0.87 | 0.94 | 0.72 | 0.00 | 0.75 | 0.94 | 0.91 | 0.94 |\n| endothelial cell of artery | 106 | 0.74 | 0.60 | 0.93 | 0.80 | 0.00 | 0.84 | 0.93 | 0.90 | 0.90 |\n| monocyte | 88 | 0.46 | 0.48 | 0.64 | 0.40 | 0.00 | 0.79 | 0.84 | 0.91 | 0.87 |\n| natural killer cell | 63 | 0.38 | 0.43 | 0.52 | 0.51 | 0.00 | 0.40 | 0.59 | 0.60 | 0.68 |\n| mast cell | 40 | 0.00 | 0.73 | 0.78 | 0.73 | 0.00 | 0.85 | 1.00 | 0.99 | 0.96 |\n| classical monocyte | 35 | 0.00 | 0.00 | 0.45 | 0.44 | 0.00 | 0.96 | 1.00 | 0.96 | 0.92 |\n| intermediate monocyte | 35 | 0.00 | 0.00 | 0.56 | 0.30 | 0.00 | 0.66 | 0.88 | 0.90 | 0.92 |\n| mature NK T cell | 20 | 0.00 | 0.00 | 0.10 | 0.00 | 0.00 | 0.42 | 0.83 | 0.78 | 0.75 |\n| leukocyte | 4 | 0.00 | 0.00 | 0.86 | 0.67 | 0.00 | 0.62 | 0.80 | 1.00 | 1.00 |\n| pericyte | 3 | 0.00 | 0.00 | 0.40 | 0.00 | 0.00 | 0.67 | 1.00 | 1.00 | 0.50 |\n| salivary gland cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.13 | 1.00 | 0.80 | 1.00 |\n| myeloid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.33 | 0.22 | 1.00 | 0.00 |\n| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.40 | 1.00 | 1.00 | 1.00 |\n| hematopoietic precursor cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 1.00 | 1.00 | 1.00 |"
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celltypist.pkl

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harmony_knn_classifier.joblib

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preprocessing.json

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         "endothelial cell of artery",
         "endothelial cell of lymphatic vessel",
         "fibroblast",
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         "intermediate monocyte",
         "ionocyte",
         "leukocyte",

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