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README.md

@@ -6,7 +6,7 @@ tags:
 - genomics
 - single-cell
 - anndata_version:0.11.3
-- python_version:3.11.11
+- python_version:3.11.12
 - popV
 - 'tissue: liver'
 ---
@@ -32,33 +32,33 @@ computed on a 10% random subset of the data that was not used for training.
 
 | Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |
 | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
-| hepatocyte | 109 | 0.99 | 0.98 | 0.98 | 0.97 | 0.00 | 0.98 | 0.97 | 0.97 | 0.98 |
-| endothelial cell of hepatic sinusoid | 53 | 0.97 | 1.00 | 0.98 | 0.98 | 0.00 | 0.97 | 0.98 | 0.96 | 0.99 |
-| Kupffer cell | 32 | 0.98 | 0.95 | 0.97 | 0.84 | 0.00 | 0.94 | 0.95 | 1.00 | 0.97 |
-| B cell | 22 | 0.98 | 0.98 | 1.00 | 0.77 | 0.00 | 0.85 | 0.98 | 0.98 | 0.98 |
-| myeloid leukocyte | 21 | 0.93 | 0.89 | 1.00 | 0.68 | 0.00 | 0.67 | 0.98 | 0.98 | 0.98 |
-| mature NK T cell | 18 | 0.65 | 0.76 | 0.71 | 0.56 | 0.00 | 0.00 | 0.89 | 0.89 | 0.87 |
-| CD8-positive, alpha-beta T cell | 5 | 0.46 | 0.33 | 0.56 | 0.18 | 0.00 | 0.33 | 0.91 | 0.83 | 0.91 |
-| T cell | 6 | 0.60 | 0.60 | 0.60 | 0.00 | 0.00 | 0.24 | 0.67 | 0.91 | 0.83 |
-| natural killer cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 |
-| CD4-positive, alpha-beta T cell | 4 | 0.29 | 0.40 | 0.22 | 0.00 | 0.00 | 0.25 | 0.89 | 1.00 | 0.67 |
-| neutrophil | 5 | 1.00 | 1.00 | 1.00 | 0.33 | 0.00 | 0.50 | 1.00 | 1.00 | 1.00 |
+| hepatocyte | 134 | 0.98 | 0.98 | 0.99 | 0.99 | 0.00 | 0.93 | 0.99 | 0.99 | 0.99 |
+| endothelial cell of hepatic sinusoid | 47 | 0.97 | 0.99 | 0.98 | 0.99 | 0.00 | 0.91 | 0.99 | 0.99 | 0.98 |
+| Kupffer cell | 27 | 0.96 | 0.93 | 0.98 | 0.86 | 0.00 | 0.78 | 1.00 | 1.00 | 0.96 |
+| B cell | 19 | 0.97 | 0.97 | 0.97 | 0.52 | 0.00 | 0.81 | 0.97 | 0.97 | 0.97 |
+| myeloid leukocyte | 23 | 0.98 | 0.88 | 1.00 | 0.56 | 0.00 | 0.67 | 0.96 | 1.00 | 0.98 |
+| mature NK T cell | 19 | 0.70 | 0.74 | 0.69 | 0.41 | 0.00 | 0.00 | 0.86 | 0.90 | 0.86 |
+| CD8-positive, alpha-beta T cell | 5 | 0.73 | 0.00 | 0.56 | 0.20 | 0.00 | 0.25 | 0.89 | 0.89 | 0.89 |
+| T cell | 5 | 0.33 | 0.33 | 0.67 | 0.00 | 0.00 | 0.33 | 0.33 | 0.57 | 0.33 |
+| natural killer cell | 3 | 0.50 | 0.33 | 0.50 | 0.00 | 0.00 | 0.29 | 1.00 | 1.00 | 0.80 |
+| CD4-positive, alpha-beta T cell | 2 | 0.67 | 1.00 | 0.80 | 0.00 | 0.00 | 0.33 | 1.00 | 1.00 | 1.00 |
+| neutrophil | 2 | 1.00 | 1.00 | 1.00 | 0.00 | 0.00 | 0.50 | 1.00 | 1.00 | 1.00 |
 
 The train accuracies are computed on the training data.
 
 | Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |
 | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
-| hepatocyte | 1043 | 0.98 | 0.98 | 0.99 | 0.98 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |
-| endothelial cell of hepatic sinusoid | 564 | 0.97 | 0.98 | 0.98 | 0.97 | 0.00 | 0.98 | 1.00 | 0.99 | 0.99 |
-| Kupffer cell | 230 | 0.96 | 0.93 | 0.96 | 0.94 | 0.00 | 0.88 | 0.99 | 0.99 | 0.97 |
-| B cell | 188 | 1.00 | 0.98 | 0.99 | 0.88 | 0.00 | 0.93 | 1.00 | 1.00 | 1.00 |
-| myeloid leukocyte | 188 | 0.94 | 0.89 | 0.95 | 0.83 | 0.00 | 0.67 | 0.99 | 1.00 | 0.98 |
-| mature NK T cell | 158 | 0.77 | 0.71 | 0.82 | 0.70 | 0.00 | 0.18 | 1.00 | 1.00 | 0.97 |
-| CD8-positive, alpha-beta T cell | 59 | 0.81 | 0.33 | 0.73 | 0.59 | 0.00 | 0.20 | 1.00 | 1.00 | 0.99 |
-| T cell | 39 | 0.71 | 0.60 | 0.89 | 0.28 | 0.00 | 0.24 | 1.00 | 1.00 | 0.97 |
-| natural killer cell | 41 | 0.67 | 0.61 | 0.78 | 0.27 | 0.00 | 0.00 | 1.00 | 1.00 | 0.96 |
-| CD4-positive, alpha-beta T cell | 38 | 0.65 | 0.39 | 0.80 | 0.37 | 0.00 | 0.22 | 1.00 | 1.00 | 0.93 |
-| neutrophil | 25 | 0.91 | 0.93 | 0.94 | 0.42 | 0.00 | 0.49 | 1.00 | 1.00 | 0.96 |
+| hepatocyte | 1028 | 0.98 | 0.98 | 0.98 | 0.98 | 0.00 | 0.93 | 1.00 | 1.00 | 0.99 |
+| endothelial cell of hepatic sinusoid | 570 | 0.97 | 0.98 | 0.98 | 0.97 | 0.00 | 0.94 | 1.00 | 1.00 | 0.99 |
+| Kupffer cell | 235 | 0.95 | 0.94 | 0.96 | 0.89 | 0.00 | 0.81 | 0.99 | 0.99 | 0.98 |
+| B cell | 191 | 0.98 | 0.98 | 0.99 | 0.80 | 0.00 | 0.93 | 1.00 | 1.00 | 0.99 |
+| myeloid leukocyte | 186 | 0.92 | 0.88 | 0.94 | 0.74 | 0.00 | 0.73 | 1.00 | 1.00 | 0.98 |
+| mature NK T cell | 157 | 0.76 | 0.69 | 0.83 | 0.73 | 0.00 | 0.01 | 1.00 | 1.00 | 0.96 |
+| CD8-positive, alpha-beta T cell | 59 | 0.79 | 0.26 | 0.75 | 0.67 | 0.00 | 0.73 | 1.00 | 1.00 | 0.97 |
+| T cell | 40 | 0.57 | 0.53 | 0.78 | 0.47 | 0.00 | 0.30 | 1.00 | 1.00 | 0.94 |
+| natural killer cell | 39 | 0.72 | 0.60 | 0.66 | 0.30 | 0.00 | 0.70 | 1.00 | 1.00 | 0.97 |
+| CD4-positive, alpha-beta T cell | 40 | 0.67 | 0.27 | 0.85 | 0.32 | 0.00 | 0.48 | 1.00 | 1.00 | 0.90 |
+| neutrophil | 28 | 0.92 | 0.93 | 0.92 | 0.13 | 0.00 | 0.68 | 1.00 | 1.00 | 0.95 |
 
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