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tabula_sapiens_Bone_Marrow

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popV
biology
genomics
single-cell
anndata_version:0.11.3
python_version:3.11.11
tissue: Bone_Marrow
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@@ -32,61 +32,61 @@ computed on a 10% random subset of the data that was not used for training.
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  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
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- | neutrophil | 887 | 0.97 | 0.96 | 0.97 | 0.96 | 0.00 | 0.92 | 0.95 | 0.95 | 0.98 |
36
- | CD4-positive, alpha-beta T cell | 302 | 0.84 | 0.86 | 0.84 | 0.81 | 0.00 | 0.83 | 0.86 | 0.89 | 0.87 |
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- | CD8-positive, alpha-beta T cell | 251 | 0.81 | 0.84 | 0.82 | 0.75 | 0.00 | 0.78 | 0.83 | 0.87 | 0.85 |
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- | monocyte | 233 | 0.77 | 0.80 | 0.81 | 0.77 | 0.00 | 0.67 | 0.67 | 0.75 | 0.80 |
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- | B cell | 195 | 0.98 | 0.98 | 0.98 | 0.98 | 0.00 | 0.99 | 0.99 | 0.98 | 0.99 |
40
- | hematopoietic precursor cell | 173 | 0.80 | 0.83 | 0.84 | 0.83 | 0.00 | 0.79 | 0.81 | 0.84 | 0.86 |
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- | plasma cell | 132 | 0.99 | 1.00 | 0.99 | 1.00 | 0.00 | 0.98 | 1.00 | 0.99 | 1.00 |
42
- | natural killer cell | 94 | 0.91 | 0.95 | 0.94 | 0.89 | 0.00 | 0.86 | 0.94 | 0.93 | 0.96 |
43
- | erythroid progenitor cell | 97 | 0.70 | 0.75 | 0.71 | 0.71 | 0.00 | 0.72 | 0.80 | 0.82 | 0.79 |
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- | hematopoietic stem cell | 78 | 0.75 | 0.82 | 0.86 | 0.82 | 0.00 | 0.86 | 0.80 | 0.84 | 0.85 |
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- | granulocyte | 64 | 0.69 | 0.34 | 0.69 | 0.37 | 0.00 | 0.48 | 0.64 | 0.63 | 0.80 |
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- | erythrocyte | 43 | 0.66 | 0.64 | 0.67 | 0.66 | 0.00 | 0.62 | 0.80 | 0.75 | 0.70 |
47
- | common myeloid progenitor | 47 | 0.64 | 0.75 | 0.64 | 0.67 | 0.00 | 0.69 | 0.69 | 0.85 | 0.73 |
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- | macrophage | 38 | 0.56 | 0.47 | 0.64 | 0.59 | 0.00 | 0.63 | 0.66 | 0.69 | 0.72 |
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- | classical monocyte | 22 | 0.08 | 0.00 | 0.15 | 0.11 | 0.00 | 0.25 | 0.14 | 0.26 | 0.07 |
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- | intermediate monocyte | 21 | 0.45 | 0.49 | 0.53 | 0.32 | 0.00 | 0.37 | 0.41 | 0.47 | 0.52 |
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- | myeloid dendritic cell | 7 | 0.36 | 0.33 | 0.62 | 0.46 | 0.00 | 0.46 | 0.44 | 0.67 | 0.58 |
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- | T cell | 12 | 0.52 | 0.15 | 0.38 | 0.27 | 0.00 | 0.42 | 0.55 | 0.67 | 0.76 |
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- | mature NK T cell | 7 | 0.00 | 0.44 | 0.00 | 0.00 | 0.00 | 0.33 | 0.55 | 0.22 | 0.40 |
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- | non-classical monocyte | 6 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.15 | 0.22 | 0.43 | 0.00 |
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- | basophil | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
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- | regulatory T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
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- | fibroblast | 1 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 | 0.25 | 0.00 | 0.00 | 1.00 |
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- | plasmacytoid dendritic cell | 2 | 0.00 | 0.67 | 0.00 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.00 |
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  | endothelial cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
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61
  The train accuracies are computed on the training data.
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63
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
64
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
65
- | neutrophil | 7790 | 0.97 | 0.96 | 0.98 | 0.97 | 0.00 | 0.96 | 0.96 | 0.95 | 0.98 |
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- | CD4-positive, alpha-beta T cell | 2871 | 0.85 | 0.86 | 0.90 | 0.86 | 0.00 | 0.86 | 0.88 | 0.92 | 0.90 |
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- | CD8-positive, alpha-beta T cell | 2385 | 0.82 | 0.84 | 0.89 | 0.81 | 0.00 | 0.82 | 0.86 | 0.89 | 0.88 |
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- | monocyte | 1807 | 0.79 | 0.80 | 0.86 | 0.84 | 0.00 | 0.76 | 0.81 | 0.86 | 0.89 |
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- | B cell | 1624 | 0.99 | 0.98 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
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- | hematopoietic precursor cell | 1547 | 0.81 | 0.86 | 0.92 | 0.89 | 0.00 | 0.85 | 0.88 | 0.89 | 0.93 |
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- | plasma cell | 1316 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 1.00 | 1.00 |
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- | natural killer cell | 1005 | 0.92 | 0.94 | 0.96 | 0.88 | 0.00 | 0.91 | 0.96 | 0.95 | 0.97 |
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- | erythroid progenitor cell | 874 | 0.71 | 0.74 | 0.82 | 0.83 | 0.00 | 0.90 | 0.93 | 0.96 | 0.94 |
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- | hematopoietic stem cell | 714 | 0.74 | 0.83 | 0.89 | 0.87 | 0.00 | 0.88 | 0.93 | 0.94 | 0.94 |
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- | granulocyte | 571 | 0.70 | 0.25 | 0.78 | 0.46 | 0.00 | 0.72 | 0.73 | 0.70 | 0.84 |
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- | erythrocyte | 410 | 0.70 | 0.66 | 0.80 | 0.79 | 0.00 | 0.90 | 0.96 | 0.96 | 0.92 |
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- | common myeloid progenitor | 406 | 0.62 | 0.65 | 0.76 | 0.77 | 0.00 | 0.82 | 0.91 | 0.95 | 0.91 |
78
- | macrophage | 320 | 0.60 | 0.57 | 0.72 | 0.69 | 0.00 | 0.82 | 0.91 | 0.93 | 0.92 |
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- | classical monocyte | 209 | 0.08 | 0.00 | 0.38 | 0.39 | 0.00 | 0.55 | 0.69 | 0.77 | 0.73 |
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- | intermediate monocyte | 203 | 0.42 | 0.48 | 0.66 | 0.53 | 0.00 | 0.71 | 0.88 | 0.92 | 0.85 |
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- | myeloid dendritic cell | 101 | 0.50 | 0.47 | 0.72 | 0.72 | 0.00 | 0.69 | 0.81 | 0.83 | 0.89 |
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- | T cell | 86 | 0.40 | 0.16 | 0.44 | 0.38 | 0.00 | 0.44 | 0.66 | 0.63 | 0.67 |
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- | mature NK T cell | 57 | 0.00 | 0.47 | 0.54 | 0.13 | 0.00 | 0.69 | 0.95 | 0.94 | 0.97 |
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- | non-classical monocyte | 47 | 0.00 | 0.25 | 0.48 | 0.33 | 0.00 | 0.81 | 0.93 | 0.97 | 0.86 |
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- | basophil | 23 | 0.00 | 0.00 | 0.64 | 0.63 | 0.00 | 0.55 | 0.82 | 0.75 | 0.81 |
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- | regulatory T cell | 14 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 | 0.61 | 0.85 | 0.70 | 0.24 |
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- | fibroblast | 10 | 0.00 | 0.55 | 0.61 | 0.61 | 0.00 | 0.30 | 0.91 | 0.95 | 0.91 |
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- | plasmacytoid dendritic cell | 7 | 0.00 | 0.12 | 0.46 | 0.62 | 0.00 | 0.40 | 0.93 | 0.88 | 0.88 |
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- | endothelial cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.60 | 1.00 | 1.00 | 0.50 |
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91
  </details>
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  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
35
+ | neutrophil | 861 | 0.96 | 0.96 | 0.97 | 0.95 | 0.00 | 0.91 | 0.95 | 0.95 | 0.97 |
36
+ | CD4-positive, alpha-beta T cell | 299 | 0.86 | 0.88 | 0.87 | 0.85 | 0.00 | 0.84 | 0.88 | 0.89 | 0.89 |
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+ | CD8-positive, alpha-beta T cell | 243 | 0.84 | 0.86 | 0.84 | 0.76 | 0.00 | 0.82 | 0.84 | 0.86 | 0.87 |
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+ | monocyte | 211 | 0.75 | 0.79 | 0.83 | 0.74 | 0.00 | 0.63 | 0.68 | 0.78 | 0.81 |
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+ | B cell | 188 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
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+ | hematopoietic precursor cell | 182 | 0.82 | 0.85 | 0.87 | 0.85 | 0.00 | 0.82 | 0.84 | 0.86 | 0.87 |
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+ | plasma cell | 153 | 0.98 | 0.99 | 0.99 | 0.98 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |
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+ | natural killer cell | 96 | 0.92 | 0.94 | 0.94 | 0.82 | 0.00 | 0.88 | 0.94 | 0.95 | 0.95 |
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+ | erythroid progenitor cell | 107 | 0.74 | 0.78 | 0.73 | 0.75 | 0.00 | 0.73 | 0.80 | 0.85 | 0.83 |
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+ | hematopoietic stem cell | 79 | 0.83 | 0.83 | 0.86 | 0.87 | 0.00 | 0.92 | 0.87 | 0.87 | 0.91 |
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+ | granulocyte | 75 | 0.72 | 0.37 | 0.70 | 0.34 | 0.00 | 0.49 | 0.64 | 0.66 | 0.77 |
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+ | erythrocyte | 49 | 0.61 | 0.66 | 0.71 | 0.62 | 0.00 | 0.59 | 0.80 | 0.81 | 0.74 |
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+ | common myeloid progenitor | 45 | 0.68 | 0.81 | 0.68 | 0.70 | 0.00 | 0.72 | 0.75 | 0.81 | 0.76 |
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+ | macrophage | 32 | 0.59 | 0.51 | 0.68 | 0.43 | 0.00 | 0.52 | 0.57 | 0.67 | 0.75 |
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+ | classical monocyte | 24 | 0.00 | 0.00 | 0.28 | 0.16 | 0.00 | 0.16 | 0.29 | 0.29 | 0.12 |
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+ | intermediate monocyte | 23 | 0.47 | 0.42 | 0.49 | 0.38 | 0.00 | 0.41 | 0.31 | 0.48 | 0.58 |
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+ | myeloid dendritic cell | 11 | 0.44 | 0.44 | 0.59 | 0.70 | 0.00 | 0.81 | 0.34 | 0.81 | 0.78 |
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+ | T cell | 11 | 0.67 | 0.40 | 0.29 | 0.40 | 0.00 | 0.51 | 0.65 | 0.79 | 0.69 |
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+ | mature NK T cell | 6 | 0.00 | 0.67 | 0.29 | 0.00 | 0.00 | 0.20 | 0.44 | 0.67 | 0.67 |
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+ | non-classical monocyte | 8 | 0.00 | 0.00 | 0.40 | 0.20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
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+ | basophil | 1 | 0.00 | 0.00 | 0.00 | 0.50 | 0.00 | 0.20 | 0.00 | 0.00 | 0.00 |
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+ | regulatory T cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 0.00 |
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+ | fibroblast | 1 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 | 0.22 | 0.00 | 0.00 | 1.00 |
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+ | plasmacytoid dendritic cell | 4 | 0.00 | 0.00 | 0.00 | 0.40 | 0.00 | 0.80 | 0.00 | 0.86 | 0.67 |
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  | endothelial cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
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61
  The train accuracies are computed on the training data.
62
 
63
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
64
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
65
+ | neutrophil | 7816 | 0.96 | 0.96 | 0.98 | 0.97 | 0.00 | 0.96 | 0.96 | 0.95 | 0.98 |
66
+ | CD4-positive, alpha-beta T cell | 2874 | 0.85 | 0.86 | 0.90 | 0.86 | 0.00 | 0.85 | 0.89 | 0.92 | 0.90 |
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+ | CD8-positive, alpha-beta T cell | 2393 | 0.84 | 0.84 | 0.88 | 0.81 | 0.00 | 0.82 | 0.87 | 0.89 | 0.88 |
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+ | monocyte | 1829 | 0.78 | 0.80 | 0.87 | 0.85 | 0.00 | 0.74 | 0.81 | 0.86 | 0.90 |
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+ | B cell | 1631 | 0.99 | 0.98 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
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+ | hematopoietic precursor cell | 1538 | 0.80 | 0.85 | 0.91 | 0.90 | 0.00 | 0.86 | 0.88 | 0.91 | 0.93 |
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+ | plasma cell | 1295 | 0.98 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |
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+ | natural killer cell | 1003 | 0.93 | 0.94 | 0.96 | 0.88 | 0.00 | 0.90 | 0.97 | 0.96 | 0.97 |
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+ | erythroid progenitor cell | 864 | 0.73 | 0.74 | 0.80 | 0.81 | 0.00 | 0.89 | 0.92 | 0.95 | 0.93 |
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+ | hematopoietic stem cell | 713 | 0.77 | 0.83 | 0.88 | 0.87 | 0.00 | 0.88 | 0.94 | 0.95 | 0.94 |
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+ | granulocyte | 560 | 0.69 | 0.24 | 0.78 | 0.63 | 0.00 | 0.70 | 0.71 | 0.67 | 0.84 |
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+ | erythrocyte | 404 | 0.62 | 0.67 | 0.79 | 0.78 | 0.00 | 0.89 | 0.95 | 0.96 | 0.91 |
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+ | common myeloid progenitor | 408 | 0.67 | 0.66 | 0.75 | 0.77 | 0.00 | 0.83 | 0.92 | 0.94 | 0.92 |
78
+ | macrophage | 326 | 0.62 | 0.54 | 0.74 | 0.69 | 0.00 | 0.82 | 0.90 | 0.91 | 0.91 |
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+ | classical monocyte | 207 | 0.00 | 0.00 | 0.44 | 0.41 | 0.00 | 0.45 | 0.74 | 0.78 | 0.78 |
80
+ | intermediate monocyte | 201 | 0.49 | 0.47 | 0.67 | 0.59 | 0.00 | 0.71 | 0.84 | 0.93 | 0.84 |
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+ | myeloid dendritic cell | 97 | 0.40 | 0.50 | 0.70 | 0.71 | 0.00 | 0.68 | 0.78 | 0.85 | 0.84 |
82
+ | T cell | 87 | 0.48 | 0.36 | 0.58 | 0.46 | 0.00 | 0.57 | 0.66 | 0.69 | 0.77 |
83
+ | mature NK T cell | 58 | 0.16 | 0.38 | 0.53 | 0.18 | 0.00 | 0.56 | 0.94 | 0.93 | 0.95 |
84
+ | non-classical monocyte | 45 | 0.00 | 0.24 | 0.44 | 0.42 | 0.00 | 0.85 | 0.97 | 0.94 | 0.92 |
85
+ | basophil | 22 | 0.00 | 0.00 | 0.70 | 0.67 | 0.00 | 0.40 | 0.86 | 0.79 | 0.83 |
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+ | regulatory T cell | 11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.34 | 1.00 | 0.85 | 0.00 |
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+ | fibroblast | 10 | 0.00 | 0.46 | 0.57 | 0.38 | 0.00 | 0.26 | 1.00 | 0.91 | 0.76 |
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+ | plasmacytoid dendritic cell | 5 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.20 | 1.00 | 0.83 | 0.83 |
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+ | endothelial cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.86 | 1.00 | 1.00 | 0.50 |
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91
  </details>
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