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README.md

@@ -54,10 +54,10 @@ space might still be useful for analysis.
 
 | Metric                  | Training Value | Validation Value |
 |-------------------------|----------------|------------------|
-| Mean Absolute Error | 2.40  | 2.45           |
-| Pearson Correlation | 0.72  | 0.74  |
+| Mean Absolute Error | 2.40  | 2.40           |
+| Pearson Correlation | 0.73  | 0.74  |
 | Spearman Correlation | 0.69 | 0.71  |
-| R² (R-Squared) | 0.25  | 0.33      |
+| R² (R-Squared) | 0.26  | 0.33      |
 
 The gene-wise coefficient of variation summarizes how well variation between different genes is
 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.
 
 | Metric                  | Training Value |
 |-------------------------|----------------|
-| Mean Absolute Error | 15.84   |
+| Mean Absolute Error | 16.01   |
 | Pearson Correlation | 0.62  |
 | Spearman Correlation | 0.65 |
-| R² (R-Squared) | -1.46  |
+| R² (R-Squared) | -1.69  |
 
 </details>
 
@@ -86,20 +86,20 @@ cell-type.
 
 | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
 | --- | --- | --- | --- | --- | --- | --- | --- |
-| luminal epithelial cell of mammary gland | 0.93 | 0.66 | 0.73 | 0.97 | 0.47 | 0.91 | 5378.00 |
-| T cell | 0.92 | 2.04 | 0.59 | 0.82 | 0.19 | 0.83 | 2324.00 |
-| fibroblast of breast | 0.91 | 1.18 | 0.72 | 0.94 | 0.44 | 0.89 | 2066.00 |
-| basal cell | 0.90 | 2.99 | 0.62 | 0.77 | 0.33 | 0.72 | 476.00 |
-| vein endothelial cell | 0.89 | 3.19 | 0.67 | 0.81 | 0.38 | 0.79 | 263.00 |
-| macrophage | 0.80 | 3.49 | 0.62 | 0.75 | 0.35 | 0.79 | 219.00 |
-| plasma cell | 0.78 | 3.40 | 0.61 | 0.71 | 0.21 | 0.86 | 194.00 |
-| endothelial cell of artery | 0.86 | 3.92 | 0.63 | 0.75 | 0.40 | 0.75 | 168.00 |
-| pericyte | 0.85 | 4.57 | 0.60 | 0.63 | 0.37 | 0.71 | 106.00 |
-| vascular associated smooth muscle cell | 0.78 | 4.96 | 0.59 | 0.59 | 0.38 | 0.71 | 71.00 |
-| B cell | 0.57 | 7.45 | 0.42 | 0.38 | 0.36 | 0.73 | 43.00 |
-| endothelial cell of lymphatic vessel | 0.56 | 6.34 | 0.51 | 0.45 | 0.41 | 0.70 | 32.00 |
-| mature NK T cell | 0.52 | 5.78 | 0.46 | 0.44 | 0.32 | 0.78 | 19.00 |
-| mast cell | 0.30 | 6.66 | 0.40 | 0.34 | 0.41 | 0.76 | 16.00 |
+| luminal epithelial cell of mammary gland | 0.91 | 0.61 | 0.82 | 0.97 | 0.47 | 0.91 | 5378.00 |
+| T cell | 0.93 | 1.99 | 0.60 | 0.84 | 0.18 | 0.83 | 2324.00 |
+| fibroblast of breast | 0.90 | 1.17 | 0.73 | 0.94 | 0.44 | 0.89 | 2066.00 |
+| basal cell | 0.92 | 2.63 | 0.67 | 0.80 | 0.31 | 0.72 | 476.00 |
+| vein endothelial cell | 0.85 | 3.26 | 0.65 | 0.80 | 0.39 | 0.79 | 263.00 |
+| macrophage | 0.75 | 3.23 | 0.66 | 0.78 | 0.33 | 0.79 | 219.00 |
+| plasma cell | 0.78 | 3.14 | 0.64 | 0.73 | 0.19 | 0.86 | 194.00 |
+| endothelial cell of artery | 0.82 | 4.08 | 0.61 | 0.74 | 0.40 | 0.75 | 168.00 |
+| pericyte | 0.85 | 4.56 | 0.60 | 0.62 | 0.38 | 0.71 | 106.00 |
+| vascular associated smooth muscle cell | 0.73 | 5.18 | 0.57 | 0.56 | 0.40 | 0.72 | 71.00 |
+| B cell | 0.61 | 7.43 | 0.41 | 0.37 | 0.38 | 0.74 | 43.00 |
+| endothelial cell of lymphatic vessel | 0.63 | 6.07 | 0.53 | 0.48 | 0.39 | 0.70 | 32.00 |
+| mature NK T cell | 0.53 | 6.14 | 0.43 | 0.41 | 0.34 | 0.78 | 19.00 |
+| mast cell | 0.27 | 6.78 | 0.39 | 0.33 | 0.40 | 0.75 | 16.00 |
 
 </details>
 
@@ -194,7 +194,7 @@ scvi-tools documentation for details. -->
 If provided by the original uploader, for those interested in understanding or replicating the
 training process, the code is available at the link below.
 
-**Training Code URL**: Not provided by uploader
+**Training Code URL**: https://github.com/YosefLab/scvi-hub-models/blob/main/src/scvi_hub_models/TS_train_all_tissues.ipynb
 
 </details>