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scvi-tools
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tabula-sapiens-spleen-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 | 1.74 | 1.80 |
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- | Pearson Correlation | 0.83 | 0.80 |
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  | Spearman Correlation | 0.76 | 0.74 |
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- | R² (R-Squared) | 0.43 | 0.38 |
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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 | 19.41 |
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- | Pearson Correlation | 0.66 |
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  | Spearman Correlation | 0.73 |
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- | R² (R-Squared) | -0.72 |
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  </details>
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@@ -86,28 +86,28 @@ 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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- | neutrophil | 0.97 | 1.62 | 0.67 | 0.87 | 0.12 | 0.86 | 4486.00 |
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- | memory B cell | 0.98 | 1.13 | 0.59 | 0.93 | 0.34 | 0.87 | 4391.00 |
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- | CD8-positive, alpha-beta memory T cell | 0.93 | 1.74 | 0.63 | 0.91 | 0.32 | 0.83 | 3479.00 |
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- | classical monocyte | 0.94 | 1.05 | 0.71 | 0.92 | 0.33 | 0.85 | 3450.00 |
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- | plasma cell | 0.84 | 0.97 | 0.76 | 0.96 | 0.38 | 0.93 | 2366.00 |
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- | mature NK T cell | 0.95 | 2.29 | 0.57 | 0.85 | 0.33 | 0.80 | 1820.00 |
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- | CD4-positive, alpha-beta memory T cell | 0.90 | 2.36 | 0.62 | 0.84 | 0.29 | 0.78 | 1463.00 |
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- | type I NK T cell | 0.91 | 2.81 | 0.57 | 0.80 | 0.33 | 0.76 | 1038.00 |
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- | naive thymus-derived CD4-positive, alpha-beta T cell | 0.90 | 2.77 | 0.60 | 0.83 | 0.30 | 0.77 | 1025.00 |
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- | macrophage | 0.90 | 1.85 | 0.73 | 0.90 | 0.40 | 0.83 | 892.00 |
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- | naive B cell | 0.88 | 3.65 | 0.58 | 0.71 | 0.28 | 0.70 | 478.00 |
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- | endothelial cell | 0.74 | 1.87 | 0.77 | 0.94 | 0.56 | 0.91 | 438.00 |
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- | naive thymus-derived CD8-positive, alpha-beta T cell | 0.83 | 4.19 | 0.58 | 0.65 | 0.32 | 0.62 | 232.00 |
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- | regulatory T cell | 0.85 | 4.38 | 0.57 | 0.69 | 0.38 | 0.74 | 232.00 |
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- | erythrocyte | 0.88 | 3.91 | 0.68 | 0.70 | 0.27 | 0.89 | 142.00 |
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- | intermediate monocyte | 0.86 | 4.69 | 0.57 | 0.59 | 0.33 | 0.74 | 131.00 |
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- | innate lymphoid cell | 0.71 | 5.28 | 0.55 | 0.55 | 0.37 | 0.62 | 90.00 |
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- | hematopoietic stem cell | 0.63 | 3.80 | 0.66 | 0.75 | 0.53 | 0.84 | 73.00 |
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- | plasmacytoid dendritic cell | 0.63 | 5.07 | 0.57 | 0.50 | 0.35 | 0.70 | 37.00 |
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- | CD1c-positive myeloid dendritic cell | 0.58 | 5.33 | 0.56 | 0.44 | 0.38 | 0.62 | 26.00 |
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- | platelet | 0.64 | 6.57 | 0.48 | 0.40 | 0.41 | 0.70 | 18.00 |
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- | CD141-positive myeloid dendritic cell | 0.53 | 5.46 | 0.57 | 0.52 | 0.39 | 0.67 | 18.00 |
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  </details>
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  | Metric | Training Value | Validation Value |
56
  |-------------------------|----------------|------------------|
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+ | Mean Absolute Error | 1.74 | 1.73 |
58
+ | Pearson Correlation | 0.83 | 0.82 |
59
  | Spearman Correlation | 0.76 | 0.74 |
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+ | R² (R-Squared) | 0.42 | 0.45 |
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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 | 19.33 |
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+ | Pearson Correlation | 0.67 |
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  | Spearman Correlation | 0.73 |
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+ | R² (R-Squared) | -0.75 |
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  </details>
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
88
  | --- | --- | --- | --- | --- | --- | --- | --- |
89
+ | neutrophil | 0.96 | 1.65 | 0.66 | 0.84 | 0.12 | 0.86 | 4486.00 |
90
+ | memory B cell | 0.96 | 1.09 | 0.60 | 0.93 | 0.34 | 0.87 | 4391.00 |
91
+ | CD8-positive, alpha-beta memory T cell | 0.92 | 1.74 | 0.63 | 0.91 | 0.32 | 0.83 | 3479.00 |
92
+ | classical monocyte | 0.93 | 1.18 | 0.66 | 0.91 | 0.33 | 0.85 | 3450.00 |
93
+ | plasma cell | 0.83 | 0.97 | 0.77 | 0.95 | 0.38 | 0.94 | 2366.00 |
94
+ | mature NK T cell | 0.95 | 2.09 | 0.62 | 0.86 | 0.32 | 0.80 | 1820.00 |
95
+ | CD4-positive, alpha-beta memory T cell | 0.89 | 2.28 | 0.64 | 0.86 | 0.29 | 0.77 | 1463.00 |
96
+ | type I NK T cell | 0.91 | 2.52 | 0.63 | 0.81 | 0.33 | 0.76 | 1038.00 |
97
+ | naive thymus-derived CD4-positive, alpha-beta T cell | 0.87 | 2.63 | 0.64 | 0.83 | 0.31 | 0.77 | 1025.00 |
98
+ | macrophage | 0.89 | 2.00 | 0.70 | 0.89 | 0.40 | 0.83 | 892.00 |
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+ | naive B cell | 0.88 | 3.78 | 0.56 | 0.71 | 0.28 | 0.70 | 478.00 |
100
+ | endothelial cell | 0.75 | 1.87 | 0.77 | 0.94 | 0.56 | 0.91 | 438.00 |
101
+ | naive thymus-derived CD8-positive, alpha-beta T cell | 0.84 | 4.38 | 0.56 | 0.63 | 0.33 | 0.62 | 232.00 |
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+ | regulatory T cell | 0.82 | 4.22 | 0.59 | 0.69 | 0.38 | 0.74 | 232.00 |
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+ | erythrocyte | 0.86 | 4.11 | 0.67 | 0.69 | 0.27 | 0.89 | 142.00 |
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+ | intermediate monocyte | 0.86 | 4.75 | 0.57 | 0.60 | 0.31 | 0.74 | 131.00 |
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+ | innate lymphoid cell | 0.75 | 5.41 | 0.54 | 0.52 | 0.36 | 0.61 | 90.00 |
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+ | hematopoietic stem cell | 0.58 | 3.83 | 0.66 | 0.74 | 0.53 | 0.84 | 73.00 |
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+ | plasmacytoid dendritic cell | 0.64 | 5.10 | 0.57 | 0.48 | 0.37 | 0.71 | 37.00 |
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+ | CD1c-positive myeloid dendritic cell | 0.62 | 5.16 | 0.57 | 0.46 | 0.37 | 0.62 | 26.00 |
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+ | platelet | 0.67 | 6.81 | 0.46 | 0.37 | 0.44 | 0.72 | 18.00 |
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+ | CD141-positive myeloid dendritic cell | 0.55 | 5.41 | 0.57 | 0.53 | 0.39 | 0.67 | 18.00 |
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  </details>
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