Joblib
popV
biology
genomics
single-cell
AnnData:0.12.2
scikit_learn:1.7.2
organism:Mus musculus
Python:3.12.8
popV:0.6.0
tissue: pancreas
tissue: lung
tissue: limb muscle
tissue: heart
tissue: skin of body
tissue: trachea
tissue: spleen
tissue: bone marrow
tissue: bladder lumen
tissue: kidney
tissue: liver
tissue: mammary gland
tissue: tongue
tissue: thymus
tissue: adipose tissue
tissue: large intestine
Upload folder using huggingface_hub
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| B cell | 3058 | 0.94 | 0.92 | 0.89 | 0.92 | 0.00 | 0.89 | 0.86 | 0.88 | 0.94 |\n| mesenchymal stem cell | 1519 | 0.91 | 0.82 | 0.94 | 0.87 | 0.00 | 0.75 | 0.94 | 0.90 | 0.96 |\n| granulocyte | 1251 | 0.89 | 0.89 | 0.83 | 0.83 | 0.00 | 0.88 | 0.80 | 0.86 | 0.91 |\n| basal cell of epidermis | 1143 | 0.89 | 0.91 | 0.89 | 0.93 | 0.00 | 0.81 | 0.90 | 0.84 | 0.95 |\n| T cell | 1143 | 0.85 | 0.81 | 0.77 | 0.73 | 0.00 | 0.76 | 0.72 | 0.78 | 0.86 |\n| keratinocyte | 1118 | 0.90 | 0.85 | 0.91 | 0.91 | 0.00 | 0.81 | 0.91 | 0.87 | 0.96 |\n| endothelial cell | 1041 | 0.89 | 0.89 | 0.84 | 0.88 | 0.00 | 0.83 | 0.96 | 0.90 | 0.95 |\n| classical monocyte | 799 | 0.83 | 0.54 | 0.77 | 0.70 | 0.00 | 0.64 | 0.85 | 0.86 | 0.93 |\n| granulocytopoietic cell | 771 | 0.78 | 0.80 | 0.81 | 0.80 | 0.00 | 0.82 | 0.77 | 0.81 | 0.86 |\n| macrophage | 728 | 0.69 | 0.64 | 0.68 | 0.69 | 0.00 | 0.55 | 0.69 | 0.73 | 0.81 |\n| bladder urothelial cell | 546 | 0.99 | 1.00 | 0.93 | 0.95 | 0.00 | 0.96 | 1.00 | 0.99 | 1.00 |\n| proerythroblast | 450 | 0.64 | 0.69 | 0.64 | 0.55 | 0.00 | 0.71 | 0.61 | 0.68 | 0.76 |\n| kidney proximal convoluted tubule epithelial cell | 431 | 0.84 | 0.86 | 0.80 | 0.84 | 0.00 | 0.84 | 0.89 | 0.87 | 0.87 |\n| endothelial cell of coronary artery | 329 | 0.77 | 0.84 | 0.70 | 0.80 | 0.00 | 0.69 | 0.96 | 0.88 | 0.93 |\n| epithelial cell of proximal tubule | 307 | 0.78 | 0.84 | 0.70 | 0.75 | 0.00 | 0.81 | 0.89 | 0.84 | 0.84 |\n| bladder cell | 299 | 0.98 | 0.97 | 0.89 | 0.80 | 0.00 | 0.68 | 0.99 | 0.97 | 0.99 |\n| mature NK T cell | 276 | 0.65 | 0.70 | 0.54 | 0.40 | 0.00 | 0.61 | 0.59 | 0.71 | 0.74 |\n| hepatocyte | 300 | 1.00 | 1.00 | 1.00 | 0.98 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| erythroblast | 272 | 0.67 | 0.69 | 0.71 | 0.67 | 0.00 | 0.74 | 0.70 | 0.74 | 0.77 |\n| promonocyte | 285 | 0.81 | 0.78 | 0.83 | 0.78 | 0.00 | 0.78 | 0.88 | 0.89 | 0.92 |\n| stromal cell | 272 | 0.70 | 0.28 | 0.89 | 0.65 | 0.00 | 0.63 | 0.94 | 0.77 | 0.89 |\n| megakaryocyte-erythroid progenitor cell | 268 | 0.63 | 0.67 | 0.53 | 0.70 | 0.00 | 0.67 | 0.68 | 0.65 | 0.72 |\n| type B pancreatic cell | 269 | 0.91 | 0.88 | 0.76 | 0.98 | 0.00 | 0.97 | 0.99 | 0.99 | 0.99 |\n| Kupffer cell | 263 | 0.97 | 0.51 | 0.76 | 0.77 | 0.00 | 0.84 | 0.98 | 0.96 | 0.97 |\n| natural killer cell | 267 | 0.89 | 0.88 | 0.78 | 0.81 | 0.00 | 0.82 | 0.88 | 0.88 | 0.91 |\n| professional antigen presenting cell | 274 | 0.00 | 0.01 | 0.15 | 0.07 | 0.00 | 0.01 | 0.54 | 0.49 | 0.06 |\n| fibroblast of cardiac tissue | 246 | 0.97 | 0.97 | 0.90 | 0.68 | 0.00 | 0.66 | 0.98 | 0.95 | 0.98 |\n| monocyte | 246 | 0.77 | 0.50 | 0.78 | 0.38 | 0.00 | 0.59 | 0.92 | 0.85 | 0.90 |\n| bronchial smooth muscle cell | 221 | 0.96 | 0.96 | 0.86 | 0.93 | 0.00 | 0.97 | 0.97 | 0.95 | 0.97 |\n| hematopoietic precursor cell | 210 | 0.59 | 0.70 | 0.50 | 0.53 | 0.00 | 0.66 | 0.71 | 0.79 | 0.78 |\n| pancreatic acinar cell | 228 | 0.99 | 0.97 | 0.55 | 0.99 | 0.00 | 0.99 | 1.00 | 1.00 | 1.00 |\n| skeletal muscle satellite cell | 183 | 0.99 | 0.99 | 0.95 | 0.97 | 0.00 | 0.96 | 0.99 | 0.98 | 0.99 |\n| DN4 thymocyte | 195 | 0.23 | 0.04 | 0.45 | 0.23 | 0.00 | 0.00 | 0.59 | 0.61 | 0.33 |\n| luminal epithelial cell of mammary gland | 180 | 0.93 | 0.91 | 0.93 | 0.91 | 0.00 | 0.91 | 0.99 | 0.95 | 0.96 |\n| mesenchymal stem cell of adipose tissue | 188 | 0.64 | 0.49 | 0.68 | 0.58 | 0.00 | 0.15 | 0.93 | 0.74 | 0.89 |\n| thymocyte | 175 | 0.97 | 0.50 | 0.89 | 0.95 | 0.00 | 0.94 | 0.98 | 0.93 | 0.98 |\n| myeloid cell | 234 | 0.56 | 0.07 | 0.51 | 0.47 | 0.00 | 0.03 | 0.86 | 0.80 | 0.71 |\n| fibroblast | 179 | 0.61 | 0.11 | 0.67 | 0.64 | 0.00 | 0.56 | 0.69 | 0.70 | 0.79 |\n| immature T cell | 172 | 0.90 | 0.74 | 0.86 | 0.94 | 0.00 | 0.96 | 0.94 | 0.88 | 0.95 |\n| intermediate monocyte | 176 | 0.66 | 0.27 | 0.62 | 0.61 | 0.00 | 0.65 | 0.60 | 0.64 | 0.77 |\n| epidermal cell | 175 | 0.94 | 0.00 | 0.88 | 0.93 | 0.00 | 0.89 | 0.93 | 0.89 | 0.96 |\n| chondrocyte | 160 | 0.87 | 0.00 | 0.86 | 0.84 | 0.00 | 0.88 | 0.88 | 0.89 | 0.89 |\n| plasma cell | 153 | 0.65 | 0.66 | 0.66 | 0.69 | 0.00 | 0.54 | 0.57 | 0.66 | 0.76 |\n| smooth muscle cell | 171 | 0.74 | 0.81 | 0.79 | 0.81 | 0.00 | 0.80 | 0.87 | 0.82 | 0.83 |\n| lymphocyte | 147 | 0.24 | 0.24 | 0.30 | 0.20 | 0.00 | 0.03 | 0.30 | 0.44 | 0.38 |\n| basal cell | 156 | 0.98 | 0.98 | 0.96 | 0.95 | 0.00 | 0.96 | 0.99 | 0.97 | 0.99 |\n| naive T cell | 151 | 0.80 | 0.90 | 0.89 | 0.90 | 0.00 | 0.89 | 0.89 | 0.88 | 0.90 |\n| kidney loop of Henle thick ascending limb epithelial cell | 152 | 0.92 | 0.92 | 0.89 | 0.92 | 0.00 | 0.83 | 0.90 | 0.90 | 0.93 |\n| fibroblast of lung | 146 | 0.95 | 0.92 | 0.96 | 0.94 | 0.00 | 0.96 | 0.99 | 0.97 | 0.97 |\n| leukocyte | 142 | 0.66 | 0.65 | 0.53 | 0.42 | 0.00 | 0.45 | 0.78 | 0.78 | 0.82 |\n| alveolar macrophage | 131 | 0.98 | 0.98 | 0.99 | 0.95 | 0.00 | 0.97 | 0.99 | 0.98 | 0.99 |\n| lung macrophage | 127 | 0.89 | 0.05 | 0.61 | 0.50 | 0.00 | 0.84 | 0.86 | 0.88 | 0.94 |\n| enterocyte of epithelium of large intestine | 98 | 0.96 | 0.69 | 0.87 | 0.92 | 0.00 | 0.94 | 0.98 | 0.94 | 0.97 |\n| non-classical monocyte | 93 | 0.76 | 0.78 | 0.76 | 0.75 | 0.00 | 0.72 | 0.85 | 0.77 | 0.80 |\n| double negative thymocyte | 80 | 0.74 | 0.00 | 0.40 | 0.65 | 0.00 | 0.77 | 0.84 | 0.78 | 0.88 |\n| precursor B cell | 108 | 0.78 | 0.87 | 0.75 | 0.81 | 0.00 | 0.88 | 0.95 | 0.93 | 0.90 |\n| mesenchymal cell | 98 | 0.28 | 0.00 | 0.11 | 0.07 | 0.00 | 0.15 | 0.45 | 0.55 | 0.38 |\n| CD8-positive, alpha-beta T cell | 78 | 0.53 | 0.68 | 0.26 | 0.20 | 0.00 | 0.50 | 0.65 | 0.71 | 0.70 |\n| immature B cell | 85 | 0.96 | 0.91 | 0.93 | 0.92 | 0.00 | 0.89 | 0.66 | 0.86 | 0.96 |\n| kidney collecting duct principal cell | 68 | 0.64 | 0.99 | 0.93 | 0.93 | 0.00 | 0.86 | 0.94 | 0.95 | 0.98 |\n| kidney distal convoluted tubule epithelial cell | 69 | 0.00 | 0.97 | 0.88 | 0.91 | 0.00 | 0.89 | 0.91 | 0.88 | 0.93 |\n| endocardial cell | 62 | 0.92 | 0.96 | 0.88 | 0.94 | 0.00 | 0.88 | 0.95 | 0.82 | 0.96 |\n| endothelial cell of hepatic sinusoid | 52 | 0.97 | 0.93 | 0.78 | 0.83 | 0.00 | 0.72 | 0.98 | 0.91 | 0.93 |\n| neutrophil | 62 | 0.63 | 0.62 | 0.68 | 0.71 | 0.00 | 0.85 | 0.91 | 0.79 | 0.84 |\n| CD4-positive, alpha-beta T cell | 49 | 0.00 | 0.30 | 0.17 | 0.19 | 0.00 | 0.23 | 0.39 | 0.37 | 0.43 |\n| late pro-B cell | 59 | 0.78 | 0.80 | 0.45 | 0.69 | 0.00 | 0.85 | 0.78 | 0.79 | 0.88 |\n| adventitial cell | 47 | 0.71 | 0.47 | 0.79 | 0.41 | 0.00 | 0.37 | 0.87 | 0.68 | 0.85 |\n| basal epithelial cell of tracheobronchial tree | 48 | 0.97 | 0.06 | 0.91 | 0.83 | 0.00 | 0.68 | 0.98 | 0.93 | 0.99 |\n| plasmatocyte | 39 | 0.77 | 0.78 | 0.67 | 0.87 | 0.00 | 0.53 | 0.85 | 0.81 | 0.92 |\n| keratinocyte stem cell | 42 | 0.84 | 0.00 | 0.72 | 0.89 | 0.00 | 0.86 | 0.91 | 0.77 | 0.91 |\n| brush cell | 35 | 0.86 | 0.83 | 0.67 | 0.83 | 0.00 | 0.86 | 0.84 | 0.76 | 0.88 |\n| erythroid progenitor cell, mammalian | 37 | 0.78 | 0.00 | 0.48 | 0.39 | 0.00 | 0.23 | 0.71 | 0.60 | 0.89 |\n| naive B cell | 38 | 0.95 | 0.96 | 0.88 | 0.92 | 0.00 | 0.82 | 0.87 | 0.91 | 0.94 |\n| kidney cortex artery cell | 37 | 0.76 | 0.85 | 0.33 | 0.67 | 0.00 | 0.54 | 0.76 | 0.67 | 0.84 |\n| erythrocyte | 30 | 0.63 | 0.49 | 0.71 | 0.62 | 0.00 | 0.38 | 0.83 | 0.71 | 0.81 |\n| intestinal crypt stem cell | 29 | 0.57 | 0.00 | 0.17 | 0.77 | 0.00 | 0.51 | 0.89 | 0.83 | 0.86 |\n| epithelial cell | 30 | 0.65 | 0.04 | 0.75 | 0.66 | 0.00 | 0.67 | 0.92 | 0.78 | 0.80 |\n| pancreatic ductal cell | 28 | 0.78 | 0.56 | 0.80 | 0.85 | 0.00 | 0.83 | 0.86 | 0.86 | 0.84 |\n| cardiac muscle cell | 32 | 0.98 | 0.97 | 1.00 | 1.00 | 0.00 | 0.93 | 0.98 | 0.97 | 0.98 |\n| vein endothelial cell | 32 | 0.54 | 0.76 | 0.50 | 0.71 | 0.00 | 0.67 | 0.87 | 0.79 | 0.81 |\n| pancreatic A cell | 37 | 0.00 | 0.00 | 0.24 | 0.93 | 0.00 | 0.84 | 0.92 | 0.93 | 0.92 |\n| myeloid leukocyte | 28 | 0.51 | 0.07 | 0.49 | 0.06 | 0.00 | 0.06 | 0.60 | 0.81 | 0.87 |\n| Schwann cell | 22 | 0.75 | 0.23 | 0.84 | 0.83 | 0.00 | 0.90 | 0.81 | 0.75 | 0.79 |\n| pancreatic D cell | 21 | 0.33 | 0.37 | 0.36 | 0.91 | 0.00 | 0.86 | 0.91 | 0.98 | 0.93 |\n| mesangial cell | 28 | 0.00 | 0.80 | 0.51 | 0.67 | 0.00 | 0.70 | 0.92 | 0.87 | 0.91 |\n| basophil | 28 | 0.67 | 0.77 | 0.85 | 0.65 | 0.00 | 0.55 | 0.66 | 0.74 | 0.85 |\n| myeloid dendritic cell | 37 | 0.35 | 0.68 | 0.29 | 0.48 | 0.00 | 0.46 | 0.81 | 0.73 | 0.83 |\n| epithelial cell of large intestine | 25 | 0.00 | 0.08 | 0.28 | 0.73 | 0.00 | 0.75 | 0.83 | 0.81 | 0.88 |\n| pulmonary interstitial fibroblast | 25 | 0.88 | 0.85 | 0.94 | 1.00 | 0.00 | 0.94 | 0.94 | 0.91 | 0.98 |\n| kidney loop of Henle ascending limb epithelial cell | 21 | 0.00 | 0.27 | 0.21 | 0.23 | 0.00 | 0.41 | 0.45 | 0.54 | 0.30 |\n| cell of skeletal muscle | 13 | 1.00 | 0.96 | 0.96 | 0.96 | 0.00 | 0.58 | 0.96 | 0.92 | 1.00 |\n| Langerhans cell | 13 | 0.96 | 0.76 | 0.00 | 0.58 | 0.00 | 0.39 | 0.87 | 0.83 | 0.92 |\n| stem cell of epidermis | 9 | 0.49 | 0.00 | 0.80 | 0.86 | 0.00 | 0.13 | 0.82 | 0.56 | 0.86 |\n| kidney capillary endothelial cell | 19 | 0.29 | 0.54 | 0.32 | 0.41 | 0.00 | 0.28 | 0.38 | 0.35 | 0.34 |\n| large intestine goblet cell | 18 | 0.00 | 0.00 | 0.62 | 0.91 | 0.00 | 0.89 | 1.00 | 0.94 | 0.97 |\n| pancreatic PP cell | 14 | 0.00 | 0.00 | 0.00 | 0.88 | 0.00 | 0.76 | 0.86 | 0.92 | 0.93 |\n| macrophage dendritic cell progenitor | 25 | 0.00 | 0.52 | 0.16 | 0.38 | 0.00 | 0.70 | 0.69 | 0.49 | 0.70 |\n| DN3 thymocyte | 15 | 0.93 | 0.85 | 0.00 | 0.93 | 0.00 | 0.85 | 0.86 | 0.85 | 0.93 |\n| smooth muscle cell of trachea | 11 | 0.00 | 0.00 | 0.38 | 0.38 | 0.00 | 0.12 | 0.62 | 0.64 | 0.31 |\n| regulatory T cell | 11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.23 | 0.20 | 0.21 | 0.00 |\n| plasmacytoid dendritic cell | 16 | 0.48 | 0.40 | 0.17 | 0.32 | 0.00 | 0.59 | 0.65 | 0.32 | 0.64 |\n| smooth muscle cell of the pulmonary artery | 6 | 0.00 | 0.80 | 0.67 | 0.46 | 0.00 | 0.45 | 0.86 | 0.62 | 0.80 |\n| kidney proximal straight tubule epithelial cell | 7 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.21 | 0.00 |\n| blood cell | 11 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.00 | 0.27 | 0.31 | 0.00 |\n| immature NK T cell | 6 | 0.29 | 0.22 | 0.33 | 0.25 | 0.00 | 0.10 | 0.32 | 0.57 | 0.40 |\n| cardiac neuron | 7 | 0.00 | 0.22 | 0.40 | 0.24 | 0.00 | 0.24 | 0.48 | 0.59 | 0.44 |\n| mast cell | 4 | 0.00 | 0.00 | 0.16 | 0.00 | 0.00 | 0.17 | 0.60 | 0.43 | 0.31 |\n| pericyte | 8 | 1.00 | 0.94 | 0.93 | 0.94 | 0.00 | 0.94 | 0.70 | 1.00 | 1.00 |\n| ciliated columnar cell of tracheobronchial tree | 3 | 0.00 | 0.04 | 0.75 | 0.86 | 0.00 | 0.55 | 0.14 | 1.00 | 1.00 |\n| neuroendocrine cell | 7 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 0.00 |\n| dendritic cell | 8 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.19 | 0.67 | 0.47 | 0.55 |\n| endothelial cell of lymphatic vessel | 3 | 0.00 | 0.50 | 0.80 | 0.00 | 0.00 | 0.14 | 0.67 | 0.36 | 0.80 |\n| hepatic stellate cell | 3 | 0.00 | 0.00 | 0.80 | 0.67 | 0.00 | 0.22 | 1.00 | 0.80 | 0.80 |\n| hematopoietic stem cell | 5 | 0.00 | 0.00 | 0.00 | 0.33 | 0.00 | 0.38 | 0.55 | 0.67 | 0.57 |\n| kidney collecting duct epithelial cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| pancreatic stellate cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 1.00 | 0.00 | 0.00 |\n| club cell | 1 | 0.15 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.15 | 0.17 |\n| lung neuroendocrine cell | 1 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 | 0.00 | 0.15 | 1.00 | 1.00 |\n| kidney cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| duct epithelial 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| B cell | 27660 | 0.94 | 0.91 | 0.94 | 0.95 | 0.00 | 0.95 | 0.88 | 0.89 | 0.96 |\n| mesenchymal stem cell | 13194 | 0.90 | 0.80 | 0.97 | 0.91 | 0.00 | 0.85 | 0.94 | 0.91 | 0.96 |\n| granulocyte | 11345 | 0.88 | 0.88 | 0.94 | 0.93 | 0.00 | 0.91 | 0.81 | 0.86 | 0.92 |\n| basal cell of epidermis | 10288 | 0.89 | 0.88 | 0.94 | 0.95 | 0.00 | 0.87 | 0.89 | 0.85 | 0.95 |\n| T cell | 10273 | 0.83 | 0.77 | 0.82 | 0.87 | 0.00 | 0.89 | 0.75 | 0.78 | 0.92 |\n| keratinocyte | 10024 | 0.89 | 0.83 | 0.95 | 0.95 | 0.00 | 0.87 | 0.91 | 0.88 | 0.96 |\n| endothelial cell | 8853 | 0.89 | 0.86 | 0.89 | 0.93 | 0.00 | 0.92 | 0.96 | 0.91 | 0.97 |\n| classical monocyte | 7123 | 0.85 | 0.48 | 0.86 | 0.90 | 0.00 | 0.90 | 0.86 | 0.86 | 0.94 |\n| granulocytopoietic cell | 6828 | 0.80 | 0.75 | 0.93 | 0.91 | 0.00 | 0.85 | 0.80 | 0.83 | 0.90 |\n| macrophage | 6456 | 0.69 | 0.62 | 0.84 | 0.82 | 0.00 | 0.84 | 0.72 | 0.75 | 0.87 |\n| bladder urothelial cell | 4685 | 0.99 | 0.99 | 1.00 | 0.98 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| proerythroblast | 4120 | 0.66 | 0.68 | 0.85 | 0.82 | 0.00 | 0.83 | 0.66 | 0.73 | 0.82 |\n| kidney proximal convoluted tubule epithelial cell | 4029 | 0.86 | 0.82 | 0.89 | 0.89 | 0.00 | 0.89 | 0.92 | 0.91 | 0.92 |\n| endothelial cell of coronary artery | 2960 | 0.77 | 0.81 | 0.81 | 0.89 | 0.00 | 0.98 | 0.97 | 0.91 | 0.98 |\n| epithelial cell of proximal tubule | 2746 | 0.80 | 0.71 | 0.84 | 0.83 | 0.00 | 0.85 | 0.89 | 0.87 | 0.89 |\n| bladder cell | 2704 | 0.97 | 0.97 | 1.00 | 0.88 | 0.00 | 0.91 | 0.99 | 0.97 | 0.99 |\n| mature NK T cell | 2686 | 0.67 | 0.69 | 0.68 | 0.82 | 0.00 | 0.80 | 0.70 | 0.76 | 0.85 |\n| hepatocyte | 2626 | 0.99 | 1.00 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| erythroblast | 2646 | 0.70 | 0.72 | 0.84 | 0.87 | 0.00 | 0.91 | 0.76 | 0.81 | 0.87 |\n| promonocyte | 2542 | 0.81 | 0.78 | 0.88 | 0.91 | 0.00 | 0.91 | 0.91 | 0.90 | 0.93 |\n| stromal cell | 2511 | 0.71 | 0.01 | 0.98 | 0.77 | 0.00 | 0.83 | 0.94 | 0.81 | 0.93 |\n| megakaryocyte-erythroid progenitor cell | 2444 | 0.70 | 0.73 | 0.83 | 0.84 | 0.00 | 0.87 | 0.76 | 0.77 | 0.86 |\n| type B pancreatic cell | 2405 | 0.92 | 0.64 | 0.92 | 0.99 | 0.00 | 0.98 | 1.00 | 1.00 | 1.00 |\n| Kupffer cell | 2283 | 0.97 | 0.39 | 0.84 | 0.91 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| natural killer cell | 2217 | 0.85 | 0.84 | 0.76 | 0.87 | 0.00 | 0.89 | 0.89 | 0.90 | 0.92 |\n| professional antigen presenting cell | 2208 | 0.00 | 0.00 | 0.31 | 0.35 | 0.00 | 0.97 | 0.56 | 0.50 | 0.46 |\n| fibroblast of cardiac tissue | 2162 | 0.98 | 0.97 | 0.97 | 0.80 | 0.00 | 0.93 | 0.99 | 0.96 | 1.00 |\n| monocyte | 2147 | 0.77 | 0.45 | 0.87 | 0.85 | 0.00 | 0.92 | 0.92 | 0.88 | 0.93 |\n| bronchial smooth muscle cell | 2118 | 0.97 | 0.97 | 0.85 | 0.96 | 0.00 | 0.98 | 0.98 | 0.97 | 0.99 |\n| hematopoietic precursor cell | 1934 | 0.57 | 0.68 | 0.67 | 0.83 | 0.00 | 0.91 | 0.74 | 0.84 | 0.90 |\n| pancreatic acinar cell | 1912 | 0.98 | 0.97 | 0.91 | 1.00 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |\n| skeletal muscle satellite cell | 1872 | 0.98 | 0.98 | 0.99 | 0.98 | 0.00 | 0.99 | 0.98 | 0.97 | 0.99 |\n| DN4 thymocyte | 1805 | 0.28 | 0.01 | 0.58 | 0.67 | 0.00 | 0.95 | 0.66 | 0.65 | 0.79 |\n| luminal epithelial cell of mammary gland | 1723 | 0.93 | 0.88 | 0.97 | 0.96 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |\n| mesenchymal stem cell of adipose tissue | 1705 | 0.57 | 0.16 | 0.87 | 0.69 | 0.00 | 0.97 | 0.93 | 0.79 | 0.94 |\n| thymocyte | 1717 | 0.98 | 0.13 | 0.93 | 0.98 | 0.00 | 0.98 | 0.99 | 0.97 | 0.99 |\n| myeloid cell | 1637 | 0.57 | 0.01 | 0.73 | 0.70 | 0.00 | 0.96 | 0.89 | 0.83 | 0.92 |\n| fibroblast | 1634 | 0.63 | 0.05 | 0.79 | 0.77 | 0.00 | 0.73 | 0.79 | 0.81 | 0.87 |\n| immature T cell | 1612 | 0.91 | 0.37 | 0.94 | 0.97 | 0.00 | 0.97 | 0.97 | 0.94 | 0.97 |\n| intermediate monocyte | 1573 | 0.64 | 0.23 | 0.69 | 0.78 | 0.00 | 0.71 | 0.65 | 0.65 | 0.81 |\n| epidermal cell | 1560 | 0.93 | 0.00 | 0.94 | 0.94 | 0.00 | 0.93 | 0.90 | 0.89 | 0.96 |\n| chondrocyte | 1470 | 0.84 | 0.00 | 0.89 | 0.88 | 0.00 | 0.89 | 0.92 | 0.92 | 0.93 |\n| plasma cell | 1468 | 0.63 | 0.65 | 0.80 | 0.82 | 0.00 | 0.71 | 0.69 | 0.74 | 0.84 |\n| smooth muscle cell | 1430 | 0.74 | 0.81 | 0.88 | 0.93 | 0.00 | 0.88 | 0.90 | 0.85 | 0.85 |\n| lymphocyte | 1444 | 0.24 | 0.20 | 0.67 | 0.52 | 0.00 | 0.81 | 0.40 | 0.52 | 0.73 |\n| basal cell | 1431 | 0.98 | 0.97 | 0.99 | 0.98 | 0.00 | 0.98 | 0.99 | 0.97 | 0.99 |\n| naive T cell | 1417 | 0.78 | 0.91 | 0.94 | 0.94 | 0.00 | 0.91 | 0.91 | 0.91 | 0.93 |\n| kidney loop of Henle thick ascending limb epithelial cell | 1402 | 0.93 | 0.93 | 0.94 | 0.93 | 0.00 | 0.92 | 0.97 | 0.96 | 0.95 |\n| fibroblast of lung | 1377 | 0.94 | 0.91 | 0.95 | 0.97 | 0.00 | 0.99 | 0.99 | 0.98 | 0.99 |\n| leukocyte | 1354 | 0.64 | 0.53 | 0.74 | 0.68 | 0.00 | 0.91 | 0.83 | 0.81 | 0.93 |\n| alveolar macrophage | 1235 | 0.98 | 0.96 | 0.98 | 0.97 | 0.00 | 0.97 | 0.98 | 0.97 | 0.99 |\n| lung macrophage | 1030 | 0.89 | 0.03 | 0.79 | 0.87 | 0.00 | 0.95 | 0.90 | 0.89 | 0.96 |\n| enterocyte of epithelium of large intestine | 1027 | 0.95 | 0.00 | 0.94 | 0.96 | 0.00 | 0.97 | 1.00 | 0.99 | 1.00 |\n| non-classical monocyte | 917 | 0.77 | 0.78 | 0.90 | 0.91 | 0.00 | 0.90 | 0.90 | 0.86 | 0.89 |\n| double negative thymocyte | 891 | 0.72 | 0.00 | 0.65 | 0.86 | 0.00 | 0.88 | 0.91 | 0.86 | 0.93 |\n| precursor B cell | 807 | 0.78 | 0.85 | 0.86 | 0.95 | 0.00 | 0.94 | 0.96 | 0.95 | 0.95 |\n| mesenchymal cell | 781 | 0.26 | 0.00 | 0.44 | 0.31 | 0.00 | 0.40 | 0.55 | 0.62 | 0.62 |\n| CD8-positive, alpha-beta T cell | 792 | 0.49 | 0.55 | 0.43 | 0.69 | 0.00 | 0.84 | 0.80 | 0.81 | 0.91 |\n| immature B cell | 741 | 0.94 | 0.89 | 0.94 | 0.93 | 0.00 | 0.90 | 0.69 | 0.87 | 0.94 |\n| kidney collecting duct principal cell | 721 | 0.65 | 0.94 | 0.96 | 0.96 | 0.00 | 0.91 | 0.99 | 0.98 | 0.98 |\n| kidney distal convoluted tubule epithelial cell | 675 | 0.00 | 0.92 | 0.93 | 0.94 | 0.00 | 0.94 | 0.98 | 0.98 | 0.96 |\n| endocardial cell | 615 | 0.89 | 0.90 | 0.92 | 0.93 | 0.00 | 0.95 | 0.96 | 0.85 | 0.98 |\n| endothelial cell of hepatic sinusoid | 622 | 0.97 | 0.95 | 0.82 | 0.90 | 0.00 | 0.87 | 0.99 | 0.98 | 0.99 |\n| neutrophil | 490 | 0.64 | 0.57 | 0.95 | 0.92 | 0.00 | 0.94 | 0.95 | 0.86 | 0.95 |\n| CD4-positive, alpha-beta T cell | 502 | 0.00 | 0.28 | 0.51 | 0.63 | 0.00 | 0.69 | 0.59 | 0.58 | 0.88 |\n| late pro-B cell | 473 | 0.77 | 0.76 | 0.67 | 0.87 | 0.00 | 0.91 | 0.91 | 0.89 | 0.96 |\n| adventitial cell | 479 | 0.78 | 0.54 | 0.94 | 0.67 | 0.00 | 0.71 | 0.90 | 0.78 | 0.95 |\n| basal epithelial cell of tracheobronchial tree | 473 | 0.95 | 0.00 | 0.99 | 0.90 | 0.00 | 0.99 | 0.98 | 0.97 | 0.99 |\n| plasmatocyte | 457 | 0.74 | 0.81 | 0.92 | 0.89 | 0.00 | 0.66 | 0.91 | 0.92 | 0.97 |\n| keratinocyte stem cell | 376 | 0.87 | 0.00 | 0.94 | 0.93 | 0.00 | 0.90 | 0.91 | 0.76 | 0.97 |\n| brush cell | 379 | 0.91 | 0.76 | 0.95 | 0.92 | 0.00 | 0.92 | 0.92 | 0.88 | 0.97 |\n| erythroid progenitor cell, mammalian | 372 | 0.79 | 0.00 | 0.93 | 0.81 | 0.00 | 0.33 | 0.80 | 0.64 | 0.94 |\n| naive B cell | 360 | 0.88 | 0.90 | 0.95 | 0.94 | 0.00 | 0.87 | 0.93 | 0.96 | 0.96 |\n| kidney cortex artery cell | 344 | 0.80 | 0.88 | 0.83 | 0.77 | 0.00 | 0.68 | 0.81 | 0.73 | 0.86 |\n| erythrocyte | 326 | 0.74 | 0.47 | 0.85 | 0.92 | 0.00 | 0.78 | 0.88 | 0.80 | 0.94 |\n| intestinal crypt stem cell | 310 | 0.68 | 0.00 | 0.87 | 0.88 | 0.00 | 0.79 | 1.00 | 0.99 | 0.99 |\n| epithelial cell | 308 | 0.70 | 0.02 | 0.93 | 0.85 | 0.00 | 0.91 | 0.95 | 0.91 | 0.97 |\n| pancreatic ductal cell | 307 | 0.82 | 0.56 | 0.96 | 0.95 | 0.00 | 0.95 | 0.97 | 0.94 | 0.97 |\n| cardiac muscle cell | 302 | 1.00 | 1.00 | 1.00 | 0.99 | 0.00 | 0.90 | 1.00 | 0.99 | 1.00 |\n| vein endothelial cell | 288 | 0.57 | 0.79 | 0.84 | 0.82 | 0.00 | 0.84 | 0.92 | 0.88 | 0.94 |\n| pancreatic A cell | 272 | 0.00 | 0.00 | 0.71 | 0.92 | 0.00 | 0.95 | 0.99 | 0.98 | 0.99 |\n| myeloid leukocyte | 278 | 0.51 | 0.06 | 0.89 | 0.51 | 0.00 | 0.94 | 0.69 | 0.87 | 0.96 |\n| Schwann cell | 252 | 0.75 | 0.23 | 0.95 | 0.90 | 0.00 | 0.95 | 0.89 | 0.85 | 0.91 |\n| pancreatic D cell | 250 | 0.39 | 0.16 | 0.87 | 0.95 | 0.00 | 0.93 | 0.99 | 0.99 | 0.97 |\n| mesangial cell | 233 | 0.00 | 0.84 | 0.77 | 0.85 | 0.00 | 0.75 | 0.94 | 0.93 | 0.98 |\n| basophil | 226 | 0.59 | 0.63 | 0.89 | 0.86 | 0.00 | 0.78 | 0.78 | 0.81 | 0.86 |\n| myeloid dendritic cell | 208 | 0.33 | 0.64 | 0.84 | 0.62 | 0.00 | 0.64 | 0.81 | 0.78 | 0.93 |\n| epithelial cell of large intestine | 204 | 0.00 | 0.00 | 0.72 | 0.81 | 0.00 | 0.85 | 0.99 | 0.96 | 0.97 |\n| pulmonary interstitial fibroblast | 197 | 0.88 | 0.86 | 0.96 | 0.96 | 0.00 | 0.95 | 0.89 | 0.97 | 0.98 |\n| kidney loop of Henle ascending limb epithelial cell | 180 | 0.00 | 0.23 | 0.41 | 0.16 | 0.00 | 0.63 | 0.82 | 0.81 | 0.54 |\n| cell of skeletal muscle | 179 | 0.98 | 0.94 | 0.98 | 0.95 | 0.00 | 0.74 | 0.98 | 0.97 | 0.98 |\n| Langerhans cell | 162 | 0.92 | 0.79 | 0.97 | 0.86 | 0.00 | 0.84 | 0.96 | 0.87 | 1.00 |\n| stem cell of epidermis | 162 | 0.68 | 0.00 | 0.81 | 0.84 | 0.00 | 0.40 | 0.91 | 0.78 | 0.93 |\n| kidney capillary endothelial cell | 142 | 0.23 | 0.34 | 0.46 | 0.35 | 0.00 | 0.24 | 0.30 | 0.30 | 0.28 |\n| large intestine goblet cell | 140 | 0.00 | 0.00 | 0.94 | 0.97 | 0.00 | 0.87 | 1.00 | 1.00 | 1.00 |\n| pancreatic PP cell | 143 | 0.00 | 0.00 | 0.71 | 0.90 | 0.00 | 0.93 | 0.99 | 0.98 | 0.99 |\n| macrophage dendritic cell progenitor | 123 | 0.00 | 0.20 | 0.41 | 0.79 | 0.00 | 0.79 | 0.86 | 0.84 | 0.87 |\n| DN3 thymocyte | 131 | 0.83 | 0.49 | 0.87 | 0.91 | 0.00 | 0.96 | 0.97 | 0.91 | 0.97 |\n| smooth muscle cell of trachea | 116 | 0.00 | 0.00 | 0.50 | 0.55 | 0.00 | 0.81 | 0.89 | 0.88 | 0.86 |\n| regulatory T cell | 112 | 0.00 | 0.05 | 0.18 | 0.38 | 0.00 | 0.49 | 0.56 | 0.42 | 0.77 |\n| plasmacytoid dendritic cell | 100 | 0.38 | 0.32 | 0.45 | 0.78 | 0.00 | 0.77 | 0.87 | 0.81 | 0.92 |\n| smooth muscle cell of the pulmonary artery | 92 | 0.00 | 0.67 | 0.88 | 0.70 | 0.00 | 0.73 | 0.96 | 0.84 | 0.93 |\n| kidney proximal straight tubule epithelial cell | 88 | 0.00 | 0.00 | 0.14 | 0.02 | 0.00 | 0.66 | 0.61 | 0.48 | 0.41 |\n| blood cell | 77 | 0.00 | 0.00 | 0.39 | 0.34 | 0.00 | 0.27 | 0.44 | 0.36 | 0.57 |\n| immature NK T cell | 78 | 0.29 | 0.06 | 0.66 | 0.66 | 0.00 | 0.31 | 0.50 | 0.56 | 0.77 |\n| cardiac neuron | 74 | 0.00 | 0.27 | 0.92 | 0.72 | 0.00 | 0.78 | 0.76 | 0.91 | 0.96 |\n| mast cell | 72 | 0.00 | 0.00 | 0.87 | 0.76 | 0.00 | 0.73 | 0.86 | 0.78 | 0.94 |\n| pericyte | 53 | 0.98 | 0.85 | 0.92 | 0.92 | 0.00 | 0.97 | 0.63 | 0.94 | 0.99 |\n| ciliated columnar cell of tracheobronchial tree | 54 | 0.00 | 0.05 | 0.69 | 0.95 | 0.00 | 0.93 | 0.41 | 1.00 | 0.97 |\n| neuroendocrine cell | 41 | 0.00 | 0.00 | 0.25 | 0.28 | 0.00 | 0.76 | 0.99 | 0.76 | 0.61 |\n| dendritic cell | 37 | 0.00 | 0.00 | 0.59 | 0.49 | 0.00 | 0.30 | 0.79 | 0.69 | 0.93 |\n| endothelial cell of lymphatic vessel | 38 | 0.00 | 0.30 | 0.93 | 0.65 | 0.00 | 0.20 | 0.75 | 0.52 | 0.97 |\n| hepatic stellate cell | 36 | 0.00 | 0.05 | 0.81 | 0.91 | 0.00 | 0.48 | 0.99 | 0.99 | 0.99 |\n| hematopoietic stem cell | 31 | 0.00 | 0.00 | 0.28 | 0.73 | 0.00 | 0.45 | 0.78 | 0.87 | 0.97 |\n| kidney collecting duct epithelial cell | 23 | 0.00 | 0.00 | 0.08 | 0.00 | 0.00 | 0.73 | 1.00 | 0.92 | 0.16 |\n| pancreatic stellate cell | 20 | 0.00 | 0.00 | 0.71 | 0.26 | 0.00 | 0.23 | 0.89 | 1.00 | 0.97 |\n| club cell | 14 | 0.07 | 0.00 | 0.25 | 0.11 | 0.00 | 0.17 | 0.21 | 0.20 | 0.15 |\n| lung neuroendocrine cell | 3 | 0.00 | 0.00 | 1.00 | 0.80 | 0.00 | 0.60 | 0.03 | 1.00 | 1.00 |\n| kidney cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.60 | 0.02 | 0.86 | 0.80 |\n| duct epithelial cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.57 | 1.00 | 0.07 | 0.00 |"
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| 4 |
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}
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celltypist.pkl
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checkpoint
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model_checkpoint_path: "OnClass"
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all_model_checkpoint_paths: "OnClass"
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harmony_knn_classifier.joblib
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obo_dag.joblib
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version https://git-lfs.github.com/spec/v1
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popv_output/predictions.csv
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preprocessing.json
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pynndescent_index.joblib
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version https://git-lfs.github.com/spec/v1
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scanvi/model.pt
ADDED
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version https://git-lfs.github.com/spec/v1
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scvi/model.pt
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version https://git-lfs.github.com/spec/v1
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scvi_knn_classifier.joblib
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version https://git-lfs.github.com/spec/v1
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version https://git-lfs.github.com/spec/v1
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xgboost_classifier.model
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version https://git-lfs.github.com/spec/v1
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