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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| neutrophil | 3223 | 1.00 | 1.00 | 0.98 | 0.99 | 0.00 | 0.97 | 0.99 | 0.99 | 1.00 |\n| erythrocyte | 1171 | 1.00 | 1.00 | 0.99 | 1.00 | 0.00 | 1.00 | 1.00 | 0.99 | 1.00 |\n| classical monocyte | 1103 | 0.79 | 0.68 | 0.82 | 0.63 | 0.00 | 0.65 | 0.70 | 0.79 | 0.83 |\n| monocyte | 949 | 0.81 | 0.31 | 0.79 | 0.52 | 0.00 | 0.21 | 0.70 | 0.79 | 0.79 |\n| CD4-positive, alpha-beta T cell | 471 | 0.85 | 0.89 | 0.89 | 0.88 | 0.00 | 0.62 | 0.78 | 0.88 | 0.89 |\n| CD8-positive, alpha-beta T cell | 427 | 0.56 | 0.64 | 0.66 | 0.68 | 0.00 | 0.65 | 0.59 | 0.64 | 0.64 |\n| B cell | 378 | 0.98 | 0.98 | 0.98 | 0.99 | 0.00 | 0.98 | 0.98 | 0.98 | 0.98 |\n| natural killer cell | 313 | 0.72 | 0.63 | 0.58 | 0.60 | 0.00 | 0.58 | 0.62 | 0.67 | 0.68 |\n| macrophage | 120 | 0.48 | 0.47 | 0.47 | 0.40 | 0.00 | 0.40 | 0.31 | 0.42 | 0.50 |\n| intermediate monocyte | 89 | 0.44 | 0.00 | 0.61 | 0.06 | 0.00 | 0.24 | 0.36 | 0.46 | 0.59 |\n| plasma cell | 89 | 0.97 | 0.98 | 0.96 | 0.98 | 0.00 | 0.96 | 0.95 | 0.98 | 0.98 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 54 | 0.48 | 0.27 | 0.38 | 0.22 | 0.00 | 0.31 | 0.44 | 0.58 | 0.51 |\n| platelet | 44 | 0.97 | 0.97 | 0.91 | 1.00 | 0.00 | 0.97 | 0.99 | 0.98 | 0.98 |\n| non-classical monocyte | 43 | 0.75 | 0.69 | 0.73 | 0.21 | 0.00 | 0.76 | 0.70 | 0.76 | 0.77 |\n| mature NK T cell | 13 | 0.45 | 0.55 | 0.43 | 0.00 | 0.00 | 0.36 | 0.43 | 0.51 | 0.60 |\n| hematopoietic precursor cell | 12 | 0.60 | 0.57 | 0.56 | 0.64 | 0.00 | 0.62 | 0.65 | 0.64 | 0.71 |\n| hematopoietic stem cell | 9 | 0.00 | 0.18 | 0.27 | 0.63 | 0.00 | 0.54 | 0.75 | 0.17 | 0.46 |\n| basophil | 9 | 0.80 | 0.00 | 0.62 | 0.67 | 0.00 | 0.29 | 0.63 | 0.71 | 0.80 |\n| regulatory T cell | 5 | 0.00 | 0.00 | 0.57 | 0.00 | 0.00 | 0.11 | 0.25 | 0.50 | 0.00 |\n| plasmacytoid dendritic cell | 1 | 0.67 | 0.00 | 0.00 | 0.50 | 0.00 | 0.40 | 0.67 | 0.00 | 0.67 |\n| common myeloid progenitor | 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| neutrophil | 28975 | 1.00 | 1.00 | 0.99 | 1.00 | 0.00 | 0.97 | 0.99 | 0.99 | 1.00 |\n| erythrocyte | 10377 | 1.00 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| classical monocyte | 9488 | 0.76 | 0.65 | 0.88 | 0.81 | 0.00 | 0.80 | 0.68 | 0.78 | 0.86 |\n| monocyte | 8653 | 0.81 | 0.25 | 0.88 | 0.83 | 0.00 | 0.79 | 0.71 | 0.80 | 0.88 |\n| CD4-positive, alpha-beta T cell | 4429 | 0.86 | 0.88 | 0.93 | 0.92 | 0.00 | 0.81 | 0.83 | 0.89 | 0.92 |\n| CD8-positive, alpha-beta T cell | 4145 | 0.55 | 0.66 | 0.78 | 0.77 | 0.00 | 0.69 | 0.65 | 0.69 | 0.74 |\n| B cell | 3515 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| natural killer cell | 2744 | 0.69 | 0.60 | 0.73 | 0.71 | 0.00 | 0.64 | 0.65 | 0.69 | 0.73 |\n| macrophage | 1108 | 0.48 | 0.46 | 0.59 | 0.61 | 0.00 | 0.52 | 0.42 | 0.53 | 0.62 |\n| intermediate monocyte | 947 | 0.45 | 0.00 | 0.71 | 0.56 | 0.00 | 0.53 | 0.48 | 0.53 | 0.68 |\n| plasma cell | 727 | 0.98 | 0.97 | 0.97 | 0.98 | 0.00 | 0.96 | 0.95 | 0.97 | 0.99 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 436 | 0.46 | 0.14 | 0.55 | 0.48 | 0.00 | 0.48 | 0.50 | 0.61 | 0.65 |\n| platelet | 394 | 0.95 | 0.96 | 0.97 | 0.99 | 0.00 | 0.94 | 0.99 | 0.98 | 0.98 |\n| non-classical monocyte | 310 | 0.77 | 0.76 | 0.87 | 0.47 | 0.00 | 0.80 | 0.73 | 0.78 | 0.88 |\n| mature NK T cell | 189 | 0.67 | 0.73 | 0.80 | 0.38 | 0.00 | 0.59 | 0.68 | 0.76 | 0.81 |\n| hematopoietic precursor cell | 119 | 0.73 | 0.65 | 0.78 | 0.82 | 0.00 | 0.76 | 0.83 | 0.94 | 0.92 |\n| hematopoietic stem cell | 55 | 0.00 | 0.35 | 0.60 | 0.62 | 0.00 | 0.69 | 0.97 | 0.99 | 0.85 |\n| basophil | 32 | 0.78 | 0.00 | 0.85 | 0.71 | 0.00 | 0.20 | 0.52 | 0.81 | 0.93 |\n| regulatory T cell | 35 | 0.00 | 0.00 | 0.69 | 0.23 | 0.00 | 0.24 | 0.80 | 0.74 | 0.74 |\n| plasmacytoid dendritic cell | 28 | 0.77 | 0.60 | 0.84 | 0.75 | 0.00 | 0.66 | 0.93 | 0.95 | 0.86 |\n| common myeloid progenitor | 3 | 0.00 | 0.00 | 0.00 | 0.50 | 0.00 | 0.00 | 1.00 | 1.00 | 1.00 |"
+    "query_accuracy": "| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| neutrophil | 3212 | 0.99 | 1.00 | 0.98 | 0.99 | 0.00 | 0.98 | 0.99 | 0.99 | 1.00 |\n| erythrocyte | 1162 | 1.00 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| classical monocyte | 1112 | 0.78 | 0.68 | 0.82 | 0.71 | 0.00 | 0.68 | 0.66 | 0.78 | 0.83 |\n| monocyte | 949 | 0.82 | 0.31 | 0.79 | 0.63 | 0.00 | 0.43 | 0.71 | 0.80 | 0.81 |\n| CD4-positive, alpha-beta T cell | 478 | 0.87 | 0.89 | 0.89 | 0.89 | 0.00 | 0.75 | 0.80 | 0.87 | 0.90 |\n| CD8-positive, alpha-beta T cell | 436 | 0.60 | 0.65 | 0.67 | 0.66 | 0.00 | 0.63 | 0.57 | 0.60 | 0.61 |\n| B cell | 377 | 0.98 | 0.98 | 0.98 | 0.99 | 0.00 | 0.98 | 0.98 | 0.98 | 0.98 |\n| natural killer cell | 312 | 0.67 | 0.64 | 0.58 | 0.58 | 0.00 | 0.66 | 0.58 | 0.65 | 0.66 |\n| macrophage | 117 | 0.51 | 0.45 | 0.48 | 0.47 | 0.00 | 0.36 | 0.34 | 0.42 | 0.51 |\n| intermediate monocyte | 90 | 0.41 | 0.00 | 0.63 | 0.32 | 0.00 | 0.27 | 0.40 | 0.46 | 0.62 |\n| plasma cell | 86 | 0.97 | 0.98 | 0.95 | 0.98 | 0.00 | 0.87 | 0.96 | 0.97 | 0.97 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 56 | 0.45 | 0.19 | 0.38 | 0.36 | 0.00 | 0.33 | 0.44 | 0.58 | 0.51 |\n| platelet | 46 | 0.94 | 0.96 | 0.93 | 0.99 | 0.00 | 0.93 | 0.99 | 0.95 | 0.98 |\n| non-classical monocyte | 44 | 0.62 | 0.70 | 0.71 | 0.07 | 0.00 | 0.70 | 0.68 | 0.80 | 0.76 |\n| mature NK T cell | 13 | 0.44 | 0.61 | 0.58 | 0.21 | 0.00 | 0.37 | 0.38 | 0.49 | 0.55 |\n| hematopoietic precursor cell | 11 | 0.62 | 0.55 | 0.60 | 0.61 | 0.00 | 0.73 | 0.62 | 0.48 | 0.73 |\n| hematopoietic stem cell | 7 | 0.00 | 0.20 | 0.46 | 0.46 | 0.00 | 0.48 | 0.62 | 0.33 | 0.55 |\n| basophil | 9 | 0.80 | 0.00 | 0.62 | 0.62 | 0.00 | 0.27 | 0.75 | 0.75 | 0.80 |\n| regulatory T cell | 5 | 0.00 | 0.00 | 0.75 | 0.00 | 0.00 | 0.30 | 0.33 | 0.80 | 0.00 |\n| plasmacytoid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 0.50 | 0.00 | 0.67 |\n| common myeloid progenitor | 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| neutrophil | 28986 | 1.00 | 1.00 | 0.99 | 1.00 | 0.00 | 0.98 | 0.99 | 0.99 | 1.00 |\n| erythrocyte | 10386 | 1.00 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| classical monocyte | 9479 | 0.73 | 0.65 | 0.88 | 0.83 | 0.00 | 0.82 | 0.68 | 0.78 | 0.87 |\n| monocyte | 8653 | 0.81 | 0.25 | 0.88 | 0.83 | 0.00 | 0.82 | 0.73 | 0.82 | 0.87 |\n| CD4-positive, alpha-beta T cell | 4422 | 0.88 | 0.89 | 0.93 | 0.92 | 0.00 | 0.86 | 0.83 | 0.89 | 0.93 |\n| CD8-positive, alpha-beta T cell | 4136 | 0.60 | 0.65 | 0.78 | 0.78 | 0.00 | 0.65 | 0.67 | 0.68 | 0.73 |\n| B cell | 3516 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |\n| natural killer cell | 2745 | 0.66 | 0.62 | 0.73 | 0.73 | 0.00 | 0.68 | 0.66 | 0.70 | 0.74 |\n| macrophage | 1111 | 0.49 | 0.45 | 0.60 | 0.59 | 0.00 | 0.44 | 0.45 | 0.53 | 0.62 |\n| intermediate monocyte | 946 | 0.42 | 0.00 | 0.73 | 0.61 | 0.00 | 0.64 | 0.49 | 0.53 | 0.71 |\n| plasma cell | 730 | 0.97 | 0.96 | 0.97 | 0.98 | 0.00 | 0.88 | 0.96 | 0.97 | 0.99 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 434 | 0.46 | 0.15 | 0.58 | 0.43 | 0.00 | 0.55 | 0.51 | 0.65 | 0.67 |\n| platelet | 392 | 0.94 | 0.96 | 0.97 | 0.99 | 0.00 | 0.92 | 0.98 | 0.96 | 0.98 |\n| non-classical monocyte | 309 | 0.72 | 0.77 | 0.87 | 0.36 | 0.00 | 0.69 | 0.72 | 0.76 | 0.86 |\n| mature NK T cell | 189 | 0.69 | 0.73 | 0.78 | 0.55 | 0.00 | 0.75 | 0.64 | 0.73 | 0.81 |\n| hematopoietic precursor cell | 120 | 0.69 | 0.70 | 0.80 | 0.82 | 0.00 | 0.91 | 0.79 | 0.94 | 0.95 |\n| hematopoietic stem cell | 57 | 0.00 | 0.44 | 0.67 | 0.63 | 0.00 | 0.82 | 0.93 | 0.99 | 0.97 |\n| basophil | 32 | 0.79 | 0.00 | 0.82 | 0.79 | 0.00 | 0.17 | 0.80 | 0.84 | 0.91 |\n| regulatory T cell | 35 | 0.00 | 0.00 | 0.69 | 0.32 | 0.00 | 0.33 | 0.79 | 0.70 | 0.75 |\n| plasmacytoid dendritic cell | 28 | 0.70 | 0.79 | 0.84 | 0.76 | 0.00 | 0.67 | 0.95 | 0.92 | 0.89 |\n| common myeloid progenitor | 3 | 0.00 | 0.00 | 0.00 | 0.67 | 0.00 | 0.02 | 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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scanvi/model.pt

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scvi/model.pt

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