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scvi-tools
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tabula-sapiens-lung-scanvi

TensorBoard
scvi-tools
biology
genomics
single-cell
model_cls_name:SCANVI
scvi_version:1.2.0
anndata_version:0.11.1
modality:rna
tissue:various
annotated:True
Model card Files Metrics Community
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  1. adata.h5ad +1 -1
  2. metrics.json +3 -3
  3. model.pt +1 -1
adata.h5ad CHANGED
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  size 39989464
metrics.json CHANGED
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  {
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- "cell_wise_cv": "| Metric | Training Value | Validation Value |\n|-------------------------|----------------|------------------|\n| Mean Absolute Error | 1.89 | 1.98 |\n| Pearson Correlation | 0.81 | 0.80 |\n| Spearman Correlation | 0.77 | 0.76 |\n| R\u00b2 (R-Squared) | 0.54 | 0.49 |",
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- "gene_wise_cv": "| Metric | Training Value |\n|-------------------------|----------------|\n| Mean Absolute Error | 16.79 |\n| Pearson Correlation | 0.75 |\n| Spearman Correlation | 0.84 |\n| R\u00b2 (R-Squared) | 0.42 |",
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- "diff_exp": "| Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |\n| --- | --- | --- | --- | --- | --- | --- | --- |\n| macrophage | 0.95 | 1.11 | 0.82 | 0.95 | 0.23 | 0.92 | 12160.00 |\n| type II pneumocyte | 0.95 | 0.80 | 0.82 | 0.96 | 0.32 | 0.87 | 9146.00 |\n| basal cell | 0.91 | 1.41 | 0.71 | 0.87 | 0.43 | 0.82 | 2188.00 |\n| capillary endothelial cell | 0.97 | 2.85 | 0.62 | 0.82 | 0.26 | 0.78 | 1534.00 |\n| classical monocyte | 0.87 | 3.29 | 0.60 | 0.74 | 0.22 | 0.81 | 1487.00 |\n| club cell | 0.93 | 2.86 | 0.64 | 0.73 | 0.29 | 0.78 | 1038.00 |\n| non-classical monocyte | 0.89 | 3.08 | 0.67 | 0.75 | 0.28 | 0.83 | 1005.00 |\n| respiratory goblet cell | 0.89 | 2.45 | 0.66 | 0.77 | 0.33 | 0.81 | 762.00 |\n| basophil | 0.93 | 3.41 | 0.66 | 0.71 | 0.22 | 0.83 | 686.00 |\n| lung ciliated cell | 0.63 | 2.64 | 0.72 | 0.84 | 0.41 | 0.84 | 602.00 |\n| CD8-positive, alpha-beta T cell | 0.88 | 3.73 | 0.64 | 0.71 | 0.27 | 0.82 | 552.00 |\n| CD4-positive, alpha-beta T cell | 0.90 | 4.19 | 0.59 | 0.62 | 0.28 | 0.82 | 543.00 |\n| vein endothelial cell | 0.94 | 4.01 | 0.55 | 0.67 | 0.34 | 0.78 | 508.00 |\n| lung microvascular endothelial cell | 0.90 | 3.60 | 0.66 | 0.71 | 0.31 | 0.85 | 485.00 |\n| adventitial cell | 0.78 | 2.84 | 0.76 | 0.92 | 0.33 | 0.80 | 373.00 |\n| fibroblast | 0.85 | 4.28 | 0.57 | 0.71 | 0.33 | 0.76 | 336.00 |\n| dendritic cell | 0.85 | 4.34 | 0.62 | 0.74 | 0.29 | 0.81 | 316.00 |\n| intermediate monocyte | 0.88 | 3.70 | 0.66 | 0.67 | 0.29 | 0.83 | 252.00 |\n| pericyte | 0.88 | 4.30 | 0.62 | 0.62 | 0.32 | 0.77 | 213.00 |\n| type I pneumocyte | 0.89 | 3.95 | 0.63 | 0.67 | 0.33 | 0.78 | 211.00 |\n| endothelial cell of artery | 0.84 | 5.28 | 0.55 | 0.62 | 0.34 | 0.77 | 187.00 |\n| neutrophil | 0.85 | 4.52 | 0.59 | 0.57 | 0.30 | 0.88 | 174.00 |\n| plasma cell | 0.80 | 4.34 | 0.60 | 0.57 | 0.28 | 0.85 | 134.00 |\n| effector CD4-positive, alpha-beta T cell | 0.88 | 4.06 | 0.64 | 0.61 | 0.34 | 0.81 | 132.00 |\n| mature NK T cell | 0.85 | 5.20 | 0.54 | 0.53 | 0.38 | 0.79 | 132.00 |\n| B cell | 0.76 | 5.10 | 0.55 | 0.50 | 0.36 | 0.76 | 87.00 |\n| bronchial smooth muscle cell | 0.77 | 4.88 | 0.61 | 0.61 | 0.31 | 0.77 | 81.00 |\n| effector CD8-positive, alpha-beta T cell | 0.83 | 4.11 | 0.63 | 0.60 | 0.37 | 0.83 | 80.00 |\n| vascular associated smooth muscle cell | 0.78 | 4.57 | 0.62 | 0.61 | 0.36 | 0.78 | 80.00 |\n| endothelial cell of lymphatic vessel | 0.52 | 5.92 | 0.53 | 0.50 | 0.32 | 0.74 | 47.00 |\n| blood vessel endothelial cell | 0.70 | 3.92 | 0.68 | 0.66 | 0.38 | 0.81 | 47.00 |\n| smooth muscle cell | 0.66 | 4.11 | 0.64 | 0.61 | 0.33 | 0.79 | 25.00 |\n| pulmonary ionocyte | 0.41 | 6.66 | 0.43 | 0.29 | 0.36 | 0.72 | 19.00 |\n| plasmacytoid dendritic cell | 0.55 | 5.51 | 0.48 | 0.48 | 0.34 | 0.83 | 18.00 |\n| mesothelial cell | 0.53 | 5.97 | 0.52 | 0.46 | 0.37 | 0.73 | 17.00 |\n| serous cell of epithelium of bronchus | 0.60 | 5.30 | 0.52 | 0.45 | 0.40 | 0.80 | 15.00 |"
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  }
 
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  {
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+ "cell_wise_cv": "| Metric | Training Value | Validation Value |\n|-------------------------|----------------|------------------|\n| Mean Absolute Error | 1.89 | 1.94 |\n| Pearson Correlation | 0.82 | 0.81 |\n| Spearman Correlation | 0.77 | 0.77 |\n| R\u00b2 (R-Squared) | 0.55 | 0.51 |",
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+ "gene_wise_cv": "| Metric | Training Value |\n|-------------------------|----------------|\n| Mean Absolute Error | 16.73 |\n| Pearson Correlation | 0.75 |\n| Spearman Correlation | 0.84 |\n| R\u00b2 (R-Squared) | 0.41 |",
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+ "diff_exp": "| Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |\n| --- | --- | --- | --- | --- | --- | --- | --- |\n| macrophage | 0.94 | 1.18 | 0.81 | 0.95 | 0.23 | 0.92 | 12160.00 |\n| type II pneumocyte | 0.95 | 0.80 | 0.83 | 0.95 | 0.32 | 0.87 | 9146.00 |\n| basal cell | 0.92 | 1.43 | 0.70 | 0.88 | 0.42 | 0.81 | 2188.00 |\n| capillary endothelial cell | 0.98 | 2.75 | 0.64 | 0.83 | 0.25 | 0.78 | 1534.00 |\n| classical monocyte | 0.90 | 3.24 | 0.61 | 0.75 | 0.22 | 0.81 | 1487.00 |\n| club cell | 0.94 | 2.88 | 0.64 | 0.73 | 0.30 | 0.78 | 1038.00 |\n| non-classical monocyte | 0.87 | 3.09 | 0.67 | 0.75 | 0.28 | 0.83 | 1005.00 |\n| respiratory goblet cell | 0.90 | 2.47 | 0.66 | 0.78 | 0.32 | 0.80 | 762.00 |\n| basophil | 0.91 | 3.61 | 0.64 | 0.69 | 0.24 | 0.84 | 686.00 |\n| lung ciliated cell | 0.61 | 2.71 | 0.71 | 0.83 | 0.41 | 0.84 | 602.00 |\n| CD8-positive, alpha-beta T cell | 0.87 | 3.70 | 0.64 | 0.71 | 0.28 | 0.82 | 552.00 |\n| CD4-positive, alpha-beta T cell | 0.88 | 4.10 | 0.60 | 0.65 | 0.25 | 0.81 | 543.00 |\n| vein endothelial cell | 0.92 | 3.92 | 0.57 | 0.68 | 0.34 | 0.77 | 508.00 |\n| lung microvascular endothelial cell | 0.90 | 3.54 | 0.67 | 0.71 | 0.31 | 0.85 | 485.00 |\n| adventitial cell | 0.77 | 2.89 | 0.77 | 0.92 | 0.33 | 0.80 | 373.00 |\n| fibroblast | 0.87 | 4.03 | 0.61 | 0.73 | 0.31 | 0.76 | 336.00 |\n| dendritic cell | 0.87 | 4.17 | 0.64 | 0.74 | 0.30 | 0.81 | 316.00 |\n| intermediate monocyte | 0.87 | 3.61 | 0.67 | 0.67 | 0.31 | 0.83 | 252.00 |\n| pericyte | 0.87 | 4.48 | 0.60 | 0.61 | 0.34 | 0.78 | 213.00 |\n| type I pneumocyte | 0.90 | 3.80 | 0.64 | 0.68 | 0.33 | 0.78 | 211.00 |\n| endothelial cell of artery | 0.87 | 5.32 | 0.55 | 0.61 | 0.35 | 0.78 | 187.00 |\n| neutrophil | 0.84 | 4.58 | 0.59 | 0.57 | 0.29 | 0.88 | 174.00 |\n| plasma cell | 0.80 | 4.34 | 0.60 | 0.57 | 0.29 | 0.86 | 134.00 |\n| effector CD4-positive, alpha-beta T cell | 0.87 | 4.12 | 0.63 | 0.60 | 0.33 | 0.81 | 132.00 |\n| mature NK T cell | 0.84 | 5.11 | 0.55 | 0.54 | 0.37 | 0.79 | 132.00 |\n| B cell | 0.77 | 5.20 | 0.54 | 0.50 | 0.34 | 0.76 | 87.00 |\n| bronchial smooth muscle cell | 0.74 | 4.90 | 0.60 | 0.61 | 0.31 | 0.77 | 81.00 |\n| effector CD8-positive, alpha-beta T cell | 0.77 | 4.16 | 0.63 | 0.61 | 0.37 | 0.83 | 80.00 |\n| vascular associated smooth muscle cell | 0.80 | 4.63 | 0.62 | 0.60 | 0.35 | 0.78 | 80.00 |\n| endothelial cell of lymphatic vessel | 0.51 | 6.13 | 0.52 | 0.48 | 0.33 | 0.75 | 47.00 |\n| blood vessel endothelial cell | 0.66 | 4.07 | 0.66 | 0.65 | 0.38 | 0.81 | 47.00 |\n| smooth muscle cell | 0.67 | 4.08 | 0.64 | 0.62 | 0.31 | 0.79 | 25.00 |\n| pulmonary ionocyte | 0.46 | 6.75 | 0.42 | 0.28 | 0.36 | 0.73 | 19.00 |\n| plasmacytoid dendritic cell | 0.57 | 5.75 | 0.46 | 0.45 | 0.35 | 0.84 | 18.00 |\n| mesothelial cell | 0.50 | 5.80 | 0.53 | 0.47 | 0.36 | 0.73 | 17.00 |\n| serous cell of epithelium of bronchus | 0.61 | 5.22 | 0.54 | 0.46 | 0.38 | 0.79 | 15.00 |"
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  }
model.pt CHANGED
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