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scvi-tools
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tabula-sapiens-thymus-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
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@@ -54,10 +54,10 @@ space might still be useful for analysis.
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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- | Mean Absolute Error | 1.67 | 1.74 |
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- | Pearson Correlation | 0.88 | 0.86 |
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- | Spearman Correlation | 0.79 | 0.79 |
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- | R² (R-Squared) | 0.49 | 0.44 |
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  The gene-wise coefficient of variation summarizes how well variation between different genes is
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  preserved by the generated model expression. This value is usually quite high.
@@ -66,10 +66,10 @@ preserved by the generated model expression. This value is usually quite high.
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  | Metric | Training Value |
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  |-------------------------|----------------|
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- | Mean Absolute Error | 4.40 |
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  | Pearson Correlation | 0.86 |
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  | Spearman Correlation | 0.98 |
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- | R² (R-Squared) | 0.36 |
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  </details>
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@@ -86,27 +86,27 @@ cell-type.
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
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  | --- | --- | --- | --- | --- | --- | --- | --- |
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- | CD4-positive helper T cell | 0.91 | 3.04 | 0.72 | 0.84 | 0.16 | 0.88 | 3356.00 |
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- | fibroblast | 0.96 | 1.15 | 0.82 | 0.97 | 0.45 | 0.92 | 3251.00 |
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- | innate lymphoid cell | 0.90 | 2.17 | 0.67 | 0.82 | 0.20 | 0.82 | 2594.00 |
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- | B cell | 0.94 | 2.63 | 0.64 | 0.76 | 0.19 | 0.84 | 1919.00 |
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- | DN3 thymocyte | 0.92 | 3.12 | 0.69 | 0.80 | 0.18 | 0.82 | 1788.00 |
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- | plasma cell | 0.90 | 1.78 | 0.73 | 0.88 | 0.26 | 0.94 | 1465.00 |
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- | vein endothelial cell | 0.93 | 1.77 | 0.79 | 0.90 | 0.35 | 0.87 | 1442.00 |
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- | vascular associated smooth muscle cell | 0.92 | 2.01 | 0.76 | 0.90 | 0.36 | 0.89 | 1439.00 |
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- | DN1 thymic pro-T cell | 0.92 | 3.69 | 0.66 | 0.76 | 0.22 | 0.83 | 985.00 |
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- | naive regulatory T cell | 0.88 | 3.55 | 0.73 | 0.79 | 0.19 | 0.84 | 761.00 |
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- | CD8-positive, alpha-beta cytotoxic T cell | 0.91 | 3.63 | 0.72 | 0.78 | 0.19 | 0.84 | 501.00 |
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- | T follicular helper cell | 0.85 | 4.12 | 0.67 | 0.72 | 0.20 | 0.81 | 398.00 |
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- | capillary endothelial cell | 0.91 | 3.17 | 0.70 | 0.78 | 0.37 | 0.82 | 383.00 |
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- | endothelial cell of artery | 0.91 | 3.10 | 0.72 | 0.81 | 0.36 | 0.83 | 355.00 |
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- | macrophage | 0.92 | 2.70 | 0.73 | 0.82 | 0.35 | 0.83 | 303.00 |
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- | endothelial cell of lymphatic vessel | 0.92 | 3.02 | 0.75 | 0.84 | 0.39 | 0.84 | 256.00 |
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- | medullary thymic epithelial cell | 0.78 | 2.32 | 0.81 | 0.91 | 0.45 | 0.89 | 140.00 |
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- | monocyte | 0.85 | 4.00 | 0.68 | 0.68 | 0.36 | 0.81 | 88.00 |
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- | mature NK T cell | 0.75 | 5.14 | 0.57 | 0.56 | 0.31 | 0.68 | 80.00 |
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- | erythrocyte | 0.76 | 4.65 | 0.57 | 0.52 | 0.25 | 0.87 | 39.00 |
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- | DN4 thymocyte | 0.74 | 4.93 | 0.63 | 0.65 | 0.38 | 0.77 | 32.00 |
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  </details>
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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+ | Mean Absolute Error | 1.70 | 1.71 |
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+ | Pearson Correlation | 0.87 | 0.87 |
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+ | Spearman Correlation | 0.79 | 0.78 |
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+ | R² (R-Squared) | 0.45 | 0.44 |
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  The gene-wise coefficient of variation summarizes how well variation between different genes is
63
  preserved by the generated model expression. This value is usually quite high.
 
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  | Metric | Training Value |
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  |-------------------------|----------------|
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+ | Mean Absolute Error | 4.39 |
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  | Pearson Correlation | 0.86 |
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  | Spearman Correlation | 0.98 |
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+ | R² (R-Squared) | 0.35 |
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  </details>
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
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  | --- | --- | --- | --- | --- | --- | --- | --- |
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+ | CD4-positive helper T cell | 0.94 | 2.89 | 0.74 | 0.85 | 0.15 | 0.88 | 3356.00 |
90
+ | fibroblast | 0.95 | 1.29 | 0.80 | 0.96 | 0.45 | 0.92 | 3251.00 |
91
+ | innate lymphoid cell | 0.90 | 2.04 | 0.68 | 0.83 | 0.20 | 0.82 | 2594.00 |
92
+ | B cell | 0.92 | 2.53 | 0.66 | 0.76 | 0.20 | 0.84 | 1919.00 |
93
+ | DN3 thymocyte | 0.91 | 3.12 | 0.69 | 0.80 | 0.17 | 0.82 | 1788.00 |
94
+ | plasma cell | 0.89 | 1.82 | 0.72 | 0.89 | 0.26 | 0.94 | 1465.00 |
95
+ | vein endothelial cell | 0.93 | 1.84 | 0.78 | 0.90 | 0.35 | 0.87 | 1442.00 |
96
+ | vascular associated smooth muscle cell | 0.92 | 1.99 | 0.76 | 0.91 | 0.36 | 0.89 | 1439.00 |
97
+ | DN1 thymic pro-T cell | 0.95 | 3.29 | 0.71 | 0.80 | 0.21 | 0.83 | 985.00 |
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+ | naive regulatory T cell | 0.88 | 3.57 | 0.72 | 0.79 | 0.19 | 0.84 | 761.00 |
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+ | CD8-positive, alpha-beta cytotoxic T cell | 0.89 | 3.59 | 0.72 | 0.77 | 0.22 | 0.84 | 501.00 |
100
+ | T follicular helper cell | 0.84 | 3.91 | 0.69 | 0.74 | 0.19 | 0.81 | 398.00 |
101
+ | capillary endothelial cell | 0.91 | 3.20 | 0.70 | 0.78 | 0.36 | 0.82 | 383.00 |
102
+ | endothelial cell of artery | 0.92 | 2.92 | 0.73 | 0.81 | 0.35 | 0.83 | 355.00 |
103
+ | macrophage | 0.87 | 2.35 | 0.77 | 0.84 | 0.33 | 0.83 | 303.00 |
104
+ | endothelial cell of lymphatic vessel | 0.91 | 3.00 | 0.75 | 0.83 | 0.39 | 0.84 | 256.00 |
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+ | medullary thymic epithelial cell | 0.79 | 2.44 | 0.80 | 0.90 | 0.45 | 0.89 | 140.00 |
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+ | monocyte | 0.84 | 4.26 | 0.66 | 0.66 | 0.38 | 0.81 | 88.00 |
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+ | mature NK T cell | 0.77 | 4.86 | 0.60 | 0.58 | 0.30 | 0.67 | 80.00 |
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+ | erythrocyte | 0.79 | 4.55 | 0.57 | 0.52 | 0.27 | 0.87 | 39.00 |
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+ | DN4 thymocyte | 0.74 | 4.84 | 0.64 | 0.65 | 0.37 | 0.77 | 32.00 |
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  </details>
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