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Browse files- .gitattributes +2 -0
- OnClass.data-00000-of-00001 +3 -0
- OnClass.index +0 -0
- OnClass.meta +3 -0
- OnClass.npz +3 -0
- accuracies.json +4 -0
- celltypist.pkl +3 -0
- checkpoint +2 -0
- harmony_knn_classifier.joblib +3 -0
- obo_dag.joblib +3 -0
- popv_output/predictions.csv +0 -0
- preprocessing.json +0 -0
- pynndescent_index.joblib +3 -0
- scanvi/model.pt +3 -0
- scvi/model.pt +3 -0
- scvi_knn_classifier.joblib +3 -0
- svm_classifier_cuml.joblib +3 -0
- xgboost_classifier.model +3 -0
.gitattributes
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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| microglial cell | 1336 | 0.99 | 0.99 | 0.96 | 0.99 | 0.00 | 0.96 | 0.99 | 0.99 | 0.99 |\n| B cell | 555 | 0.65 | 0.71 | 0.72 | 0.68 | 0.00 | 0.71 | 0.65 | 0.70 | 0.77 |\n| endothelial cell | 482 | 0.79 | 0.84 | 0.80 | 0.70 | 0.00 | 0.70 | 0.86 | 0.82 | 0.89 |\n| mesenchymal stem cell of adipose tissue | 455 | 0.84 | 0.89 | 0.75 | 0.65 | 0.00 | 0.65 | 0.93 | 0.86 | 0.90 |\n| basal cell of epidermis | 406 | 0.87 | 0.91 | 0.84 | 0.86 | 0.00 | 0.81 | 0.93 | 0.89 | 0.93 |\n| fibroblast of cardiac tissue | 342 | 0.93 | 0.93 | 0.73 | 0.63 | 0.00 | 0.19 | 0.97 | 0.93 | 0.95 |\n| hematopoietic stem cell | 312 | 0.95 | 0.95 | 0.94 | 0.95 | 0.00 | 0.94 | 0.98 | 0.96 | 0.97 |\n| granulocyte | 294 | 0.89 | 0.91 | 0.89 | 0.86 | 0.00 | 0.71 | 0.92 | 0.91 | 0.93 |\n| naive B cell | 334 | 0.46 | 0.09 | 0.54 | 0.41 | 0.00 | 0.19 | 0.58 | 0.65 | 0.41 |\n| skeletal muscle satellite cell | 278 | 0.98 | 0.98 | 0.95 | 0.95 | 0.00 | 0.95 | 0.97 | 0.96 | 0.98 |\n| endothelial cell of coronary artery | 263 | 0.78 | 0.81 | 0.63 | 0.43 | 0.00 | 0.64 | 0.89 | 0.83 | 0.90 |\n| keratinocyte stem cell | 255 | 0.93 | 0.93 | 0.95 | 0.93 | 0.00 | 0.93 | 0.97 | 0.94 | 0.96 |\n| myeloid cell | 240 | 0.51 | 0.67 | 0.51 | 0.46 | 0.00 | 0.53 | 0.68 | 0.67 | 0.69 |\n| enterocyte of epithelium of large intestine | 269 | 0.91 | 0.93 | 0.88 | 0.94 | 0.00 | 0.94 | 0.94 | 0.91 | 0.94 |\n| macrophage | 251 | 0.35 | 0.52 | 0.44 | 0.46 | 0.00 | 0.34 | 0.51 | 0.55 | 0.59 |\n| basal cell | 206 | 1.00 | 0.99 | 0.97 | 0.94 | 0.00 | 0.95 | 0.99 | 0.98 | 0.99 |\n| bronchial smooth muscle cell | 208 | 0.95 | 0.95 | 0.85 | 0.71 | 0.00 | 0.89 | 0.95 | 0.96 | 0.96 |\n| oligodendrocyte | 221 | 0.99 | 1.00 | 0.99 | 1.00 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| DN4 thymocyte | 166 | 0.61 | 0.62 | 0.42 | 0.53 | 0.00 | 0.52 | 0.77 | 0.75 | 0.75 |\n| epithelial cell of large intestine | 172 | 0.89 | 0.88 | 0.72 | 0.83 | 0.00 | 0.86 | 0.93 | 0.91 | 0.91 |\n| thymocyte | 150 | 0.89 | 0.91 | 0.74 | 0.83 | 0.00 | 0.84 | 0.91 | 0.92 | 0.92 |\n| large intestine goblet cell | 168 | 0.80 | 0.85 | 0.81 | 0.82 | 0.00 | 0.81 | 0.91 | 0.89 | 0.90 |\n| intestinal crypt stem cell | 155 | 0.86 | 0.90 | 0.81 | 0.87 | 0.00 | 0.89 | 0.94 | 0.89 | 0.93 |\n| mesenchymal stem cell | 176 | 0.70 | 0.80 | 0.59 | 0.47 | 0.00 | 0.53 | 0.89 | 0.81 | 0.86 |\n| bladder urothelial cell | 124 | 0.97 | 0.96 | 0.92 | 0.90 | 0.00 | 0.93 | 0.99 | 0.99 | 0.98 |\n| type B pancreatic cell | 129 | 0.99 | 0.98 | 0.93 | 0.97 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| fibroblast | 136 | 0.51 | 0.65 | 0.31 | 0.37 | 0.00 | 0.34 | 0.87 | 0.71 | 0.74 |\n| T cell | 101 | 0.33 | 0.39 | 0.38 | 0.30 | 0.00 | 0.37 | 0.44 | 0.47 | 0.45 |\n| monocyte | 115 | 0.55 | 0.72 | 0.52 | 0.57 | 0.00 | 0.46 | 0.77 | 0.75 | 0.80 |\n| keratinocyte | 130 | 0.81 | 0.90 | 0.71 | 0.74 | 0.00 | 0.78 | 0.94 | 0.87 | 0.93 |\n| CD4-positive, alpha-beta T cell | 142 | 0.57 | 0.64 | 0.49 | 0.45 | 0.00 | 0.55 | 0.58 | 0.63 | 0.70 |\n| hepatocyte | 102 | 0.96 | 0.96 | 0.97 | 0.94 | 0.00 | 0.95 | 0.97 | 0.95 | 0.97 |\n| CD8-positive, alpha-beta T cell | 111 | 0.52 | 0.47 | 0.48 | 0.46 | 0.00 | 0.54 | 0.51 | 0.58 | 0.59 |\n| promonocyte | 98 | 0.48 | 0.69 | 0.61 | 0.46 | 0.00 | 0.53 | 0.72 | 0.73 | 0.76 |\n| bladder cell | 88 | 0.99 | 0.99 | 0.90 | 0.64 | 0.00 | 0.81 | 1.00 | 0.96 | 0.99 |\n| natural killer cell | 96 | 0.78 | 0.76 | 0.70 | 0.60 | 0.00 | 0.71 | 0.71 | 0.72 | 0.79 |\n| precursor B cell | 86 | 0.84 | 0.87 | 0.68 | 0.73 | 0.00 | 0.84 | 0.89 | 0.88 | 0.90 |\n| luminal epithelial cell of mammary gland | 80 | 0.92 | 0.95 | 0.94 | 0.91 | 0.00 | 0.90 | 0.97 | 0.96 | 0.96 |\n| endothelial cell of hepatic sinusoid | 59 | 0.93 | 0.97 | 0.90 | 0.81 | 0.00 | 0.88 | 0.93 | 0.93 | 0.94 |\n| astrocyte | 53 | 0.85 | 0.94 | 0.88 | 0.92 | 0.00 | 0.95 | 0.94 | 0.93 | 0.95 |\n| immature B cell | 48 | 0.63 | 0.52 | 0.39 | 0.27 | 0.00 | 0.46 | 0.60 | 0.56 | 0.71 |\n| pancreatic acinar cell | 58 | 0.97 | 0.97 | 0.97 | 0.95 | 0.00 | 0.98 | 1.00 | 1.00 | 1.00 |\n| secretory cell | 61 | 0.68 | 0.56 | 0.42 | 0.45 | 0.00 | 0.67 | 0.86 | 0.84 | 0.80 |\n| pancreatic A cell | 67 | 0.88 | 0.92 | 0.86 | 0.90 | 0.00 | 0.94 | 0.96 | 0.95 | 0.94 |\n| epidermal cell | 59 | 0.82 | 0.79 | 0.39 | 0.69 | 0.00 | 0.69 | 0.84 | 0.76 | 0.83 |\n| neuron | 37 | 0.65 | 0.68 | 0.60 | 0.68 | 0.00 | 0.85 | 0.92 | 0.82 | 0.86 |\n| brain pericyte | 40 | 0.79 | 0.83 | 0.73 | 0.74 | 0.00 | 0.91 | 0.95 | 0.88 | 0.86 |\n| granulocytopoietic cell | 46 | 0.75 | 0.86 | 0.76 | 0.85 | 0.00 | 0.78 | 0.86 | 0.80 | 0.83 |\n| fibroblast of lung | 48 | 0.95 | 0.95 | 0.93 | 0.92 | 0.00 | 0.93 | 0.97 | 0.95 | 0.97 |\n| kidney collecting duct epithelial cell | 33 | 0.61 | 0.86 | 0.85 | 0.79 | 0.00 | 0.98 | 0.99 | 0.99 | 0.98 |\n| aortic endothelial cell | 9 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.11 | 0.08 | 0.09 |\n| epithelial cell | 34 | 0.31 | 0.11 | 0.43 | 0.41 | 0.00 | 0.37 | 0.54 | 0.48 | 0.59 |\n| late pro-B cell | 38 | 0.88 | 0.94 | 0.93 | 0.84 | 0.00 | 0.91 | 0.96 | 0.92 | 0.97 |\n| basal epithelial cell of tracheobronchial tree | 34 | 0.62 | 0.51 | 0.42 | 0.61 | 0.00 | 0.67 | 0.89 | 0.80 | 0.88 |\n| regular atrial cardiac myocyte | 39 | 0.45 | 0.64 | 0.73 | 0.61 | 0.00 | 0.58 | 0.76 | 0.77 | 0.80 |\n| epithelial cell of proximal tubule | 33 | 0.35 | 0.78 | 0.69 | 0.71 | 0.00 | 0.91 | 0.96 | 0.97 | 0.93 |\n| endocardial cell | 38 | 0.96 | 0.95 | 0.93 | 0.80 | 0.00 | 0.82 | 0.97 | 0.96 | 0.99 |\n| myeloid dendritic cell | 39 | 0.48 | 0.57 | 0.12 | 0.33 | 0.00 | 0.44 | 0.75 | 0.70 | 0.68 |\n| stromal cell | 25 | 0.26 | 0.35 | 0.20 | 0.29 | 0.00 | 0.36 | 0.58 | 0.58 | 0.62 |\n| mature alpha-beta T cell | 32 | 0.22 | 0.15 | 0.09 | 0.31 | 0.00 | 0.36 | 0.36 | 0.49 | 0.26 |\n| cardiac valve cell | 33 | 0.78 | 0.85 | 0.78 | 0.81 | 0.00 | 0.88 | 0.90 | 0.86 | 0.85 |\n| pancreatic ductal cell | 34 | 1.00 | 0.99 | 0.99 | 0.96 | 0.00 | 0.99 | 1.00 | 1.00 | 1.00 |\n| oligodendrocyte precursor cell | 36 | 0.97 | 0.99 | 0.93 | 0.93 | 0.00 | 1.00 | 0.99 | 0.94 | 0.99 |\n| adventitial cell | 41 | 0.48 | 0.40 | 0.31 | 0.10 | 0.00 | 0.27 | 0.79 | 0.55 | 0.69 |\n| chondrocyte | 23 | 0.73 | 0.79 | 0.81 | 0.67 | 0.00 | 0.81 | 0.89 | 0.85 | 0.83 |\n| Kupffer cell | 38 | 0.99 | 0.93 | 0.84 | 0.85 | 0.00 | 0.80 | 0.97 | 0.92 | 0.97 |\n| granulocyte monocyte progenitor cell | 21 | 0.65 | 0.78 | 0.81 | 0.68 | 0.00 | 0.79 | 0.84 | 0.86 | 0.88 |\n| interneuron | 25 | 0.49 | 0.67 | 0.47 | 0.60 | 0.00 | 0.89 | 0.96 | 0.89 | 0.88 |\n| myeloid leukocyte | 17 | 0.00 | 0.21 | 0.38 | 0.29 | 0.00 | 0.06 | 0.20 | 0.50 | 0.20 |\n| classical monocyte | 13 | 0.00 | 0.27 | 0.28 | 0.22 | 0.00 | 0.36 | 0.62 | 0.57 | 0.53 |\n| mature NK T cell | 19 | 0.40 | 0.17 | 0.26 | 0.16 | 0.00 | 0.46 | 0.33 | 0.68 | 0.58 |\n| pancreatic D cell | 17 | 0.94 | 0.90 | 0.82 | 0.94 | 0.00 | 0.92 | 1.00 | 1.00 | 1.00 |\n| brush cell of epithelium proper of large intestine | 15 | 0.76 | 0.73 | 0.33 | 0.74 | 0.00 | 0.64 | 0.94 | 0.88 | 0.90 |\n| epithelial cell of thymus | 19 | 0.10 | 0.00 | 0.18 | 0.55 | 0.00 | 0.46 | 0.56 | 0.49 | 0.53 |\n| enteroendocrine cell | 11 | 0.95 | 0.62 | 0.53 | 0.86 | 0.00 | 0.81 | 0.90 | 1.00 | 0.95 |\n| leukocyte | 16 | 0.00 | 0.61 | 0.40 | 0.00 | 0.00 | 0.06 | 0.75 | 0.81 | 0.67 |\n| neutrophil | 12 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.18 | 0.42 | 0.40 | 0.11 |\n| vein endothelial cell | 13 | 0.43 | 0.27 | 0.20 | 0.12 | 0.00 | 0.78 | 1.00 | 0.74 | 0.70 |\n| kidney collecting duct principal cell | 11 | 0.00 | 0.86 | 0.73 | 0.78 | 0.00 | 0.87 | 0.91 | 0.83 | 0.95 |\n| neuroepithelial stem cell | 22 | 0.32 | 0.09 | 0.43 | 0.50 | 0.00 | 0.62 | 0.83 | 0.74 | 0.84 |\n| non-classical monocyte | 16 | 0.00 | 0.55 | 0.33 | 0.22 | 0.00 | 0.46 | 0.67 | 0.72 | 0.59 |\n| regular ventricular cardiac myocyte | 16 | 0.43 | 0.00 | 0.81 | 0.80 | 0.00 | 0.82 | 1.00 | 0.94 | 0.86 |\n| kidney loop of Henle ascending limb epithelial cell | 12 | 0.63 | 0.85 | 0.77 | 0.80 | 0.00 | 0.96 | 0.96 | 0.87 | 0.92 |\n| smooth muscle cell of trachea | 11 | 0.00 | 0.00 | 0.21 | 0.27 | 0.00 | 0.29 | 0.52 | 0.46 | 0.40 |\n| professional antigen presenting cell | 2 | 0.00 | 0.00 | 0.14 | 0.50 | 0.00 | 0.33 | 0.36 | 0.21 | 0.50 |\n| smooth muscle cell of the pulmonary artery | 6 | 0.00 | 0.44 | 0.00 | 0.33 | 0.00 | 0.27 | 0.83 | 0.77 | 0.91 |\n| proerythroblast | 10 | 0.00 | 0.40 | 0.24 | 0.31 | 0.00 | 0.17 | 0.30 | 0.40 | 0.12 |\n| smooth muscle cell | 14 | 0.00 | 0.58 | 0.33 | 0.24 | 0.00 | 0.67 | 0.93 | 0.84 | 0.77 |\n| medium spiny neuron | 11 | 1.00 | 0.95 | 0.40 | 0.86 | 0.00 | 0.96 | 1.00 | 1.00 | 1.00 |\n| endothelial cell of lymphatic vessel | 7 | 0.47 | 0.46 | 0.83 | 0.22 | 0.00 | 0.52 | 0.88 | 0.64 | 0.82 |\n| neural stem cell | 14 | 0.00 | 0.80 | 0.72 | 0.64 | 0.00 | 0.79 | 0.89 | 0.75 | 0.85 |\n| mesangial cell | 8 | 0.00 | 0.40 | 0.00 | 0.00 | 0.00 | 0.21 | 0.43 | 0.56 | 0.55 |\n| megakaryocyte-erythroid progenitor cell | 10 | 0.32 | 0.40 | 0.40 | 0.57 | 0.00 | 0.55 | 0.57 | 0.67 | 0.64 |\n| mucus secreting cell | 9 | 0.64 | 0.55 | 0.71 | 0.62 | 0.00 | 0.89 | 0.95 | 1.00 | 0.90 |\n| early pro-B cell | 7 | 0.00 | 0.83 | 0.83 | 0.86 | 0.00 | 0.86 | 0.86 | 0.80 | 0.92 |\n| pancreatic PP cell | 8 | 0.00 | 0.40 | 0.22 | 0.20 | 0.00 | 0.71 | 0.88 | 0.80 | 0.40 |\n| basophil | 11 | 0.27 | 0.43 | 0.84 | 0.64 | 0.00 | 0.69 | 0.95 | 0.82 | 0.87 |\n| ciliated columnar cell of tracheobronchial tree | 9 | 0.62 | 0.84 | 0.88 | 0.82 | 0.00 | 0.82 | 0.90 | 0.82 | 0.95 |\n| dendritic cell | 8 | 0.44 | 0.29 | 0.00 | 0.42 | 0.00 | 0.31 | 0.59 | 0.47 | 0.42 |\n| ependymal cell | 6 | 0.00 | 0.60 | 0.67 | 0.92 | 0.00 | 0.80 | 1.00 | 0.92 | 1.00 |\n| Bergmann glial cell | 2 | 0.00 | 0.67 | 0.67 | 0.50 | 0.00 | 0.50 | 0.50 | 0.50 | 0.67 |\n| pulmonary interstitial fibroblast | 4 | 0.38 | 0.50 | 0.50 | 0.75 | 0.00 | 0.67 | 0.86 | 0.67 | 0.67 |\n| pancreatic stellate cell | 3 | 0.67 | 0.67 | 0.67 | 0.00 | 0.00 | 0.18 | 0.67 | 0.57 | 0.67 |\n| regulatory T cell | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| pericyte | 4 | 0.00 | 0.67 | 0.75 | 0.67 | 0.00 | 0.67 | 0.75 | 0.89 | 0.75 |\n| fibrocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| respiratory basal cell | 6 | 0.00 | 0.00 | 0.00 | 0.67 | 0.00 | 0.56 | 0.80 | 0.91 | 0.67 |\n| plasma cell | 2 | 0.17 | 0.00 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.36 | 0.36 |\n| club cell | 2 | 0.00 | 0.00 | 0.10 | 0.20 | 0.00 | 0.11 | 0.67 | 0.29 | 0.40 |\n| kidney interstitial fibroblast | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 0.00 |\n| lymphoid lineage restricted progenitor cell | 2 | 0.00 | 0.00 | 0.67 | 1.00 | 0.00 | 0.80 | 0.67 | 0.67 | 0.67 |\n| intermediate monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| lymphocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| lung macrophage | 1 | 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| lung neuroendocrine cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |",
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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| microglial cell | 11932 | 0.99 | 0.99 | 0.95 | 0.99 | 0.00 | 0.97 | 0.99 | 0.99 | 1.00 |\n| B cell | 5056 | 0.64 | 0.71 | 0.82 | 0.78 | 0.00 | 0.93 | 0.69 | 0.73 | 0.86 |\n| endothelial cell | 4433 | 0.79 | 0.79 | 0.85 | 0.78 | 0.00 | 0.81 | 0.87 | 0.84 | 0.92 |\n| mesenchymal stem cell of adipose tissue | 4275 | 0.85 | 0.88 | 0.81 | 0.76 | 0.00 | 0.97 | 0.94 | 0.88 | 0.96 |\n| basal cell of epidermis | 3808 | 0.84 | 0.89 | 0.92 | 0.90 | 0.00 | 0.81 | 0.93 | 0.91 | 0.93 |\n| fibroblast of cardiac tissue | 3575 | 0.92 | 0.91 | 0.81 | 0.78 | 0.00 | 0.96 | 0.95 | 0.92 | 0.96 |\n| hematopoietic stem cell | 2994 | 0.93 | 0.94 | 0.96 | 0.96 | 0.00 | 0.96 | 0.97 | 0.96 | 0.97 |\n| granulocyte | 2672 | 0.89 | 0.91 | 0.90 | 0.92 | 0.00 | 0.94 | 0.95 | 0.94 | 0.96 |\n| naive B cell | 2625 | 0.38 | 0.02 | 0.75 | 0.61 | 0.00 | 0.92 | 0.61 | 0.66 | 0.73 |\n| skeletal muscle satellite cell | 2441 | 0.97 | 0.97 | 0.91 | 0.98 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |\n| endothelial cell of coronary artery | 2431 | 0.76 | 0.75 | 0.81 | 0.63 | 0.00 | 0.87 | 0.91 | 0.87 | 0.95 |\n| keratinocyte stem cell | 2384 | 0.94 | 0.94 | 0.96 | 0.95 | 0.00 | 0.95 | 0.97 | 0.95 | 0.97 |\n| myeloid cell | 2307 | 0.52 | 0.66 | 0.70 | 0.66 | 0.00 | 0.82 | 0.77 | 0.78 | 0.85 |\n| enterocyte of epithelium of large intestine | 2273 | 0.91 | 0.94 | 0.95 | 0.95 | 0.00 | 0.94 | 0.95 | 0.94 | 0.96 |\n| macrophage | 2192 | 0.33 | 0.48 | 0.72 | 0.63 | 0.00 | 0.67 | 0.60 | 0.66 | 0.72 |\n| basal cell | 1933 | 0.99 | 0.98 | 0.98 | 0.96 | 0.00 | 0.97 | 0.99 | 0.99 | 0.99 |\n| bronchial smooth muscle cell | 1907 | 0.94 | 0.93 | 0.81 | 0.77 | 0.00 | 0.94 | 0.98 | 0.96 | 0.97 |\n| oligodendrocyte | 1873 | 0.98 | 0.99 | 0.98 | 1.00 | 0.00 | 0.99 | 1.00 | 0.99 | 0.99 |\n| DN4 thymocyte | 1590 | 0.59 | 0.56 | 0.66 | 0.69 | 0.00 | 0.92 | 0.86 | 0.86 | 0.88 |\n| epithelial cell of large intestine | 1532 | 0.88 | 0.88 | 0.87 | 0.88 | 0.00 | 0.89 | 0.95 | 0.93 | 0.94 |\n| thymocyte | 1475 | 0.88 | 0.90 | 0.80 | 0.92 | 0.00 | 0.93 | 0.95 | 0.96 | 0.95 |\n| large intestine goblet cell | 1419 | 0.78 | 0.83 | 0.89 | 0.88 | 0.00 | 0.92 | 0.96 | 0.93 | 0.95 |\n| intestinal crypt stem cell | 1424 | 0.87 | 0.90 | 0.91 | 0.91 | 0.00 | 0.90 | 0.95 | 0.91 | 0.95 |\n| mesenchymal stem cell | 1250 | 0.64 | 0.68 | 0.65 | 0.60 | 0.00 | 0.92 | 0.89 | 0.84 | 0.91 |\n| bladder urothelial cell | 1278 | 0.98 | 0.94 | 0.95 | 0.94 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |\n| type B pancreatic cell | 1213 | 0.96 | 0.96 | 0.90 | 0.96 | 0.00 | 0.97 | 0.98 | 0.98 | 0.97 |\n| fibroblast | 1193 | 0.48 | 0.54 | 0.60 | 0.54 | 0.00 | 0.96 | 0.92 | 0.83 | 0.92 |\n| T cell | 1218 | 0.49 | 0.52 | 0.60 | 0.59 | 0.00 | 0.71 | 0.74 | 0.77 | 0.74 |\n| monocyte | 1165 | 0.60 | 0.72 | 0.83 | 0.73 | 0.00 | 0.82 | 0.86 | 0.84 | 0.91 |\n| keratinocyte | 1084 | 0.76 | 0.88 | 0.91 | 0.83 | 0.00 | 0.78 | 0.93 | 0.90 | 0.92 |\n| CD4-positive, alpha-beta T cell | 1028 | 0.54 | 0.54 | 0.66 | 0.60 | 0.00 | 0.72 | 0.73 | 0.79 | 0.78 |\n| hepatocyte | 1047 | 0.96 | 0.95 | 0.95 | 0.96 | 0.00 | 0.96 | 0.98 | 0.98 | 0.98 |\n| CD8-positive, alpha-beta T cell | 959 | 0.49 | 0.51 | 0.62 | 0.59 | 0.00 | 0.74 | 0.75 | 0.78 | 0.76 |\n| promonocyte | 917 | 0.45 | 0.60 | 0.93 | 0.61 | 0.00 | 0.95 | 0.87 | 0.87 | 0.95 |\n| bladder cell | 914 | 0.98 | 0.98 | 0.91 | 0.80 | 0.00 | 0.99 | 1.00 | 0.96 | 1.00 |\n| natural killer cell | 779 | 0.75 | 0.75 | 0.75 | 0.73 | 0.00 | 0.80 | 0.88 | 0.90 | 0.88 |\n| precursor B cell | 770 | 0.83 | 0.85 | 0.87 | 0.80 | 0.00 | 0.90 | 0.96 | 0.95 | 0.94 |\n| luminal epithelial cell of mammary gland | 688 | 0.95 | 0.96 | 0.99 | 0.97 | 0.00 | 0.95 | 1.00 | 0.98 | 0.99 |\n| endothelial cell of hepatic sinusoid | 558 | 0.94 | 0.85 | 0.90 | 0.84 | 0.00 | 0.92 | 0.99 | 0.98 | 0.99 |\n| astrocyte | 539 | 0.86 | 0.93 | 0.95 | 0.95 | 0.00 | 0.97 | 0.99 | 0.99 | 0.98 |\n| immature B cell | 541 | 0.64 | 0.55 | 0.63 | 0.54 | 0.00 | 0.80 | 0.79 | 0.79 | 0.87 |\n| pancreatic acinar cell | 518 | 0.92 | 0.94 | 0.94 | 0.94 | 0.00 | 0.97 | 0.99 | 0.99 | 0.98 |\n| secretory cell | 502 | 0.64 | 0.28 | 0.78 | 0.71 | 0.00 | 0.86 | 0.95 | 0.91 | 0.93 |\n| pancreatic A cell | 454 | 0.83 | 0.82 | 0.87 | 0.87 | 0.00 | 0.92 | 0.97 | 0.96 | 0.91 |\n| epidermal cell | 433 | 0.72 | 0.67 | 0.78 | 0.77 | 0.00 | 0.65 | 0.84 | 0.82 | 0.83 |\n| neuron | 447 | 0.69 | 0.66 | 0.72 | 0.80 | 0.00 | 0.91 | 0.98 | 0.97 | 0.95 |\n| brain pericyte | 444 | 0.79 | 0.80 | 0.82 | 0.83 | 0.00 | 0.94 | 1.00 | 0.98 | 0.92 |\n| granulocytopoietic cell | 437 | 0.78 | 0.87 | 0.90 | 0.89 | 0.00 | 0.81 | 0.93 | 0.92 | 0.94 |\n| fibroblast of lung | 431 | 0.96 | 0.96 | 0.88 | 0.88 | 0.00 | 0.98 | 0.99 | 0.97 | 0.99 |\n| kidney collecting duct epithelial cell | 407 | 0.65 | 0.81 | 0.88 | 0.81 | 0.00 | 0.96 | 1.00 | 0.99 | 0.97 |\n| aortic endothelial cell | 420 | 0.21 | 0.02 | 0.39 | 0.40 | 0.00 | 0.67 | 0.55 | 0.49 | 0.82 |\n| epithelial cell | 392 | 0.30 | 0.04 | 0.72 | 0.64 | 0.00 | 0.76 | 0.72 | 0.74 | 0.82 |\n| late pro-B cell | 373 | 0.84 | 0.91 | 0.93 | 0.86 | 0.00 | 0.94 | 0.99 | 0.98 | 0.97 |\n| basal epithelial cell of tracheobronchial tree | 367 | 0.69 | 0.53 | 0.80 | 0.69 | 0.00 | 0.88 | 0.95 | 0.88 | 0.94 |\n| regular atrial cardiac myocyte | 360 | 0.54 | 0.60 | 0.81 | 0.72 | 0.00 | 0.74 | 0.81 | 0.88 | 0.91 |\n| epithelial cell of proximal tubule | 349 | 0.39 | 0.77 | 0.87 | 0.77 | 0.00 | 0.95 | 0.99 | 0.99 | 0.96 |\n| endocardial cell | 337 | 0.96 | 0.93 | 0.96 | 0.83 | 0.00 | 0.93 | 0.96 | 0.95 | 0.97 |\n| myeloid dendritic cell | 334 | 0.45 | 0.47 | 0.86 | 0.58 | 0.00 | 0.91 | 0.89 | 0.82 | 0.88 |\n| stromal cell | 315 | 0.24 | 0.19 | 0.62 | 0.47 | 0.00 | 0.94 | 0.76 | 0.68 | 0.92 |\n| mature alpha-beta T cell | 298 | 0.32 | 0.19 | 0.60 | 0.48 | 0.00 | 0.80 | 0.74 | 0.86 | 0.83 |\n| cardiac valve cell | 282 | 0.86 | 0.91 | 0.81 | 0.88 | 0.00 | 0.95 | 0.96 | 0.97 | 0.94 |\n| pancreatic ductal cell | 279 | 0.98 | 0.97 | 0.99 | 0.94 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |\n| oligodendrocyte precursor cell | 276 | 0.96 | 0.98 | 0.95 | 0.98 | 0.00 | 0.99 | 1.00 | 1.00 | 1.00 |\n| adventitial cell | 247 | 0.48 | 0.52 | 0.72 | 0.30 | 0.00 | 0.89 | 0.89 | 0.73 | 0.95 |\n| chondrocyte | 252 | 0.87 | 0.80 | 0.91 | 0.82 | 0.00 | 0.89 | 0.98 | 0.95 | 0.95 |\n| Kupffer cell | 224 | 0.94 | 0.64 | 0.88 | 0.82 | 0.00 | 0.75 | 0.98 | 0.97 | 0.99 |\n| granulocyte monocyte progenitor cell | 229 | 0.62 | 0.78 | 0.87 | 0.86 | 0.00 | 0.83 | 0.90 | 0.89 | 0.91 |\n| interneuron | 215 | 0.55 | 0.68 | 0.82 | 0.76 | 0.00 | 0.89 | 0.98 | 0.94 | 0.90 |\n| myeloid leukocyte | 192 | 0.00 | 0.11 | 0.82 | 0.40 | 0.00 | 0.87 | 0.91 | 0.89 | 0.97 |\n| classical monocyte | 189 | 0.00 | 0.34 | 0.64 | 0.53 | 0.00 | 0.90 | 0.87 | 0.86 | 0.92 |\n| mature NK T cell | 180 | 0.35 | 0.14 | 0.66 | 0.38 | 0.00 | 0.72 | 0.91 | 0.92 | 0.91 |\n| pancreatic D cell | 174 | 0.90 | 0.89 | 0.87 | 0.89 | 0.00 | 0.91 | 0.99 | 0.98 | 0.96 |\n| brush cell of epithelium proper of large intestine | 160 | 0.76 | 0.76 | 0.77 | 0.81 | 0.00 | 0.85 | 0.98 | 0.97 | 0.94 |\n| epithelial cell of thymus | 146 | 0.22 | 0.01 | 0.58 | 0.50 | 0.00 | 0.76 | 0.89 | 0.78 | 0.93 |\n| enteroendocrine cell | 150 | 0.88 | 0.53 | 0.76 | 0.89 | 0.00 | 0.91 | 0.99 | 0.98 | 0.98 |\n| leukocyte | 142 | 0.00 | 0.31 | 0.71 | 0.44 | 0.00 | 0.74 | 0.81 | 0.85 | 0.95 |\n| neutrophil | 141 | 0.00 | 0.10 | 0.28 | 0.21 | 0.00 | 0.80 | 0.75 | 0.69 | 0.80 |\n| vein endothelial cell | 139 | 0.53 | 0.54 | 0.71 | 0.30 | 0.00 | 0.88 | 0.95 | 0.89 | 0.85 |\n| kidney collecting duct principal cell | 140 | 0.00 | 0.78 | 0.88 | 0.75 | 0.00 | 0.96 | 0.99 | 0.96 | 0.98 |\n| neuroepithelial stem cell | 129 | 0.21 | 0.03 | 0.84 | 0.73 | 0.00 | 0.73 | 0.91 | 0.83 | 0.93 |\n| non-classical monocyte | 133 | 0.00 | 0.36 | 0.59 | 0.38 | 0.00 | 0.83 | 0.81 | 0.77 | 0.89 |\n| regular ventricular cardiac myocyte | 129 | 0.53 | 0.00 | 0.87 | 0.84 | 0.00 | 0.91 | 0.98 | 0.98 | 0.98 |\n| kidney loop of Henle ascending limb epithelial cell | 132 | 0.65 | 0.85 | 0.92 | 0.69 | 0.00 | 0.96 | 1.00 | 0.99 | 0.99 |\n| smooth muscle cell of trachea | 114 | 0.00 | 0.11 | 0.58 | 0.52 | 0.00 | 0.85 | 0.85 | 0.77 | 0.84 |\n| professional antigen presenting cell | 114 | 0.14 | 0.15 | 0.53 | 0.61 | 0.00 | 0.84 | 0.87 | 0.80 | 0.93 |\n| smooth muscle cell of the pulmonary artery | 105 | 0.00 | 0.55 | 0.77 | 0.40 | 0.00 | 0.53 | 0.89 | 0.83 | 0.91 |\n| proerythroblast | 97 | 0.00 | 0.10 | 0.62 | 0.28 | 0.00 | 0.76 | 0.92 | 0.87 | 0.89 |\n| smooth muscle cell | 89 | 0.00 | 0.34 | 0.67 | 0.42 | 0.00 | 0.95 | 0.97 | 0.92 | 0.91 |\n| medium spiny neuron | 92 | 0.98 | 0.54 | 0.83 | 0.88 | 0.00 | 0.94 | 1.00 | 0.99 | 0.99 |\n| endothelial cell of lymphatic vessel | 92 | 0.47 | 0.41 | 0.93 | 0.55 | 0.00 | 0.63 | 0.81 | 0.72 | 0.85 |\n| neural stem cell | 83 | 0.00 | 0.75 | 0.83 | 0.94 | 0.00 | 0.93 | 1.00 | 0.95 | 0.99 |\n| mesangial cell | 84 | 0.00 | 0.16 | 0.61 | 0.39 | 0.00 | 0.79 | 0.86 | 0.68 | 0.91 |\n| megakaryocyte-erythroid progenitor cell | 70 | 0.30 | 0.27 | 0.80 | 0.82 | 0.00 | 0.81 | 0.89 | 0.96 | 0.94 |\n| mucus secreting cell | 64 | 0.57 | 0.64 | 0.86 | 0.82 | 0.00 | 0.96 | 0.95 | 0.98 | 0.98 |\n| early pro-B cell | 65 | 0.00 | 0.69 | 0.70 | 0.79 | 0.00 | 0.92 | 0.99 | 0.99 | 0.94 |\n| pancreatic PP cell | 63 | 0.00 | 0.17 | 0.67 | 0.35 | 0.00 | 0.90 | 0.99 | 0.98 | 0.82 |\n| basophil | 60 | 0.28 | 0.61 | 0.76 | 0.81 | 0.00 | 0.75 | 0.97 | 0.82 | 0.85 |\n| ciliated columnar cell of tracheobronchial tree | 61 | 0.80 | 0.87 | 0.96 | 0.86 | 0.00 | 0.88 | 0.99 | 0.93 | 0.98 |\n| dendritic cell | 54 | 0.45 | 0.26 | 0.77 | 0.64 | 0.00 | 0.91 | 0.91 | 0.84 | 0.81 |\n| ependymal cell | 49 | 0.00 | 0.70 | 0.97 | 0.85 | 0.00 | 0.95 | 1.00 | 1.00 | 0.98 |\n| Bergmann glial cell | 52 | 0.00 | 0.45 | 0.86 | 0.76 | 0.00 | 0.77 | 1.00 | 1.00 | 0.96 |\n| pulmonary interstitial fibroblast | 45 | 0.41 | 0.59 | 0.76 | 0.74 | 0.00 | 0.92 | 1.00 | 0.94 | 0.95 |\n| pancreatic stellate cell | 45 | 0.88 | 0.47 | 0.93 | 0.48 | 0.00 | 0.86 | 0.90 | 0.89 | 0.95 |\n| regulatory T cell | 43 | 0.00 | 0.00 | 0.12 | 0.04 | 0.00 | 0.68 | 0.90 | 0.91 | 0.44 |\n| pericyte | 34 | 0.00 | 0.77 | 0.72 | 0.82 | 0.00 | 0.84 | 0.96 | 0.94 | 0.93 |\n| fibrocyte | 35 | 0.00 | 0.00 | 0.40 | 0.41 | 0.00 | 0.60 | 0.76 | 0.82 | 0.87 |\n| respiratory basal cell | 28 | 0.00 | 0.00 | 0.89 | 0.74 | 0.00 | 0.68 | 0.95 | 0.98 | 0.96 |\n| plasma cell | 23 | 0.16 | 0.00 | 0.75 | 0.16 | 0.00 | 0.25 | 0.45 | 0.36 | 0.43 |\n| club cell | 20 | 0.00 | 0.00 | 0.22 | 0.17 | 0.00 | 0.26 | 0.91 | 0.44 | 0.57 |\n| kidney interstitial fibroblast | 15 | 0.00 | 0.00 | 0.64 | 0.85 | 0.00 | 0.83 | 0.86 | 0.97 | 1.00 |\n| lymphoid lineage restricted progenitor cell | 11 | 0.00 | 0.00 | 0.90 | 0.91 | 0.00 | 0.69 | 0.63 | 1.00 | 0.95 |\n| intermediate monocyte | 12 | 0.00 | 0.00 | 0.25 | 0.13 | 0.00 | 0.91 | 1.00 | 1.00 | 0.50 |\n| lymphocyte | 9 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.76 | 1.00 | 1.00 | 0.20 |\n| lung macrophage | 8 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 | 0.44 | 0.89 | 0.80 | 0.93 |\n| plasmacytoid dendritic cell | 6 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.63 | 0.43 | 0.86 | 0.67 |\n| lung neuroendocrine cell | 4 | 0.00 | 0.00 | 0.86 | 0.86 | 0.00 | 1.00 | 0.89 | 1.00 | 0.86 |"
|
4 |
+
}
|
celltypist.pkl
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harmony_knn_classifier.joblib
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obo_dag.joblib
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popv_output/predictions.csv
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See raw diff
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preprocessing.json
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pynndescent_index.joblib
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