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popV
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tabula_sapiens_Stomach

Joblib
popV
biology
genomics
single-cell
AnnData:0.12.2
scikit_learn:1.7.2
organism:Homo sapiens
Python:3.12.8
popV:0.6.0
tissue: Stomach
Model card Files
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@@ -5,7 +5,8 @@ tags:
5
  - biology
6
  - genomics
7
  - single-cell
8
- - anndata_version:0.11.1
 
9
  - popV
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  - 'tissue: Stomach'
11
  ---
@@ -31,51 +32,51 @@ 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 |
33
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
34
- | fibroblast | 642 | 0.98 | 0.95 | 0.98 | 0.97 | 0.00 | 0.96 | 0.96 | 0.97 | 0.99 |
35
- | CD4-positive, alpha-beta T cell | 573 | 0.90 | 0.91 | 0.89 | 0.86 | 0.00 | 0.79 | 0.92 | 0.91 | 0.93 |
36
- | mononuclear phagocyte | 525 | 0.96 | 0.90 | 0.97 | 0.91 | 0.00 | 0.90 | 0.93 | 0.94 | 0.97 |
37
- | plasma cell | 426 | 0.99 | 0.98 | 0.94 | 0.95 | 0.00 | 0.96 | 0.99 | 0.99 | 0.99 |
38
- | B cell | 212 | 0.92 | 0.93 | 0.94 | 0.92 | 0.00 | 0.94 | 0.94 | 0.93 | 0.95 |
39
- | epithelial cell | 165 | 0.98 | 0.97 | 0.98 | 0.98 | 0.00 | 0.96 | 0.98 | 0.99 | 0.99 |
40
- | CD8-positive, alpha-beta T cell | 168 | 0.74 | 0.72 | 0.75 | 0.64 | 0.00 | 0.62 | 0.74 | 0.73 | 0.76 |
41
- | macrophage | 109 | 0.79 | 0.15 | 0.81 | 0.48 | 0.00 | 0.66 | 0.77 | 0.79 | 0.82 |
42
- | monocyte | 109 | 0.88 | 0.89 | 0.91 | 0.89 | 0.00 | 0.89 | 0.83 | 0.81 | 0.91 |
43
- | mast cell | 98 | 0.98 | 0.98 | 0.99 | 0.98 | 0.00 | 0.96 | 1.00 | 0.97 | 0.99 |
44
- | neutrophil | 96 | 0.99 | 1.00 | 0.98 | 0.99 | 0.00 | 0.99 | 0.99 | 1.00 | 0.99 |
45
- | tissue-resident macrophage | 59 | 0.83 | 0.10 | 0.80 | 0.79 | 0.00 | 0.78 | 0.71 | 0.80 | 0.89 |
46
- | endothelial cell of lymphatic vessel | 58 | 0.98 | 0.96 | 0.99 | 0.91 | 0.00 | 0.92 | 1.00 | 0.95 | 0.97 |
47
- | regulatory T cell | 23 | 0.44 | 0.00 | 0.15 | 0.06 | 0.00 | 0.33 | 0.72 | 0.88 | 0.56 |
48
- | natural killer cell | 11 | 0.65 | 0.56 | 0.54 | 0.61 | 0.00 | 0.63 | 0.63 | 0.62 | 0.58 |
49
- | mature NK T cell | 13 | 0.00 | 0.25 | 0.48 | 0.18 | 0.00 | 0.61 | 0.71 | 0.62 | 0.50 |
50
- | T cell | 11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.16 | 0.67 | 0.25 | 0.29 |
51
- | interstitial cell of Cajal | 6 | 0.86 | 0.00 | 1.00 | 0.50 | 0.00 | 0.60 | 1.00 | 1.00 | 1.00 |
52
- | smooth muscle cell | 3 | 0.60 | 0.80 | 0.67 | 0.00 | 0.00 | 0.67 | 0.40 | 0.46 | 0.60 |
53
  | enteroendocrine cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
54
 
55
  The train accuracies are computed on the training data.
56
 
57
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
58
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
59
- | fibroblast | 5903 | 0.98 | 0.95 | 0.99 | 0.98 | 0.00 | 0.96 | 0.97 | 0.98 | 0.99 |
60
- | CD4-positive, alpha-beta T cell | 5211 | 0.91 | 0.91 | 0.93 | 0.92 | 0.00 | 0.86 | 0.93 | 0.94 | 0.95 |
61
- | mononuclear phagocyte | 4811 | 0.96 | 0.89 | 0.97 | 0.95 | 0.00 | 0.94 | 0.95 | 0.95 | 0.97 |
62
- | plasma cell | 3757 | 0.99 | 0.96 | 0.97 | 0.97 | 0.00 | 0.97 | 0.99 | 0.99 | 0.99 |
63
- | B cell | 1969 | 0.94 | 0.90 | 0.95 | 0.93 | 0.00 | 0.93 | 0.95 | 0.95 | 0.95 |
64
- | epithelial cell | 1436 | 0.98 | 0.97 | 0.99 | 0.98 | 0.00 | 0.97 | 0.99 | 0.98 | 0.99 |
65
- | CD8-positive, alpha-beta T cell | 1418 | 0.75 | 0.76 | 0.82 | 0.76 | 0.00 | 0.75 | 0.82 | 0.83 | 0.84 |
66
- | macrophage | 954 | 0.79 | 0.13 | 0.85 | 0.77 | 0.00 | 0.73 | 0.84 | 0.87 | 0.87 |
67
- | monocyte | 945 | 0.86 | 0.80 | 0.89 | 0.89 | 0.00 | 0.87 | 0.86 | 0.87 | 0.90 |
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- | mast cell | 870 | 0.97 | 0.97 | 0.98 | 0.98 | 0.00 | 0.96 | 0.99 | 0.98 | 0.98 |
69
- | neutrophil | 832 | 1.00 | 0.94 | 0.99 | 0.98 | 0.00 | 0.98 | 1.00 | 0.99 | 1.00 |
70
- | tissue-resident macrophage | 588 | 0.83 | 0.05 | 0.89 | 0.87 | 0.00 | 0.75 | 0.77 | 0.83 | 0.89 |
71
- | endothelial cell of lymphatic vessel | 492 | 0.99 | 0.93 | 0.99 | 0.96 | 0.00 | 0.97 | 0.99 | 0.98 | 0.99 |
72
- | regulatory T cell | 206 | 0.45 | 0.00 | 0.52 | 0.07 | 0.00 | 0.43 | 0.67 | 0.92 | 0.73 |
73
- | natural killer cell | 112 | 0.71 | 0.58 | 0.80 | 0.71 | 0.00 | 0.75 | 0.89 | 0.89 | 0.86 |
74
- | mature NK T cell | 74 | 0.00 | 0.03 | 0.66 | 0.29 | 0.00 | 0.69 | 0.85 | 0.83 | 0.87 |
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- | T cell | 65 | 0.00 | 0.00 | 0.23 | 0.11 | 0.00 | 0.39 | 0.77 | 0.70 | 0.87 |
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- | interstitial cell of Cajal | 65 | 0.79 | 0.00 | 0.91 | 0.85 | 0.00 | 0.70 | 0.94 | 0.93 | 0.93 |
77
- | smooth muscle cell | 24 | 0.69 | 0.14 | 0.77 | 0.46 | 0.00 | 0.53 | 0.86 | 0.89 | 0.79 |
78
- | enteroendocrine cell | 25 | 0.66 | 0.27 | 0.96 | 0.78 | 0.00 | 0.66 | 0.98 | 0.98 | 0.94 |
79
 
80
  </details>
81
 
 
5
  - biology
6
  - genomics
7
  - single-cell
8
+ - anndata_version:0.11.3
9
+ - python_version:3.11.11
10
  - popV
11
  - 'tissue: Stomach'
12
  ---
 
32
 
33
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
35
+ | fibroblast | 645 | 0.96 | 0.96 | 0.98 | 0.98 | 0.00 | 0.95 | 0.96 | 0.96 | 0.98 |
36
+ | CD4-positive, alpha-beta T cell | 568 | 0.90 | 0.91 | 0.88 | 0.86 | 0.00 | 0.85 | 0.90 | 0.92 | 0.92 |
37
+ | mononuclear phagocyte | 530 | 0.96 | 0.89 | 0.96 | 0.89 | 0.00 | 0.93 | 0.94 | 0.93 | 0.96 |
38
+ | plasma cell | 425 | 0.99 | 0.97 | 0.95 | 0.99 | 0.00 | 0.98 | 1.00 | 1.00 | 1.00 |
39
+ | B cell | 212 | 0.93 | 0.92 | 0.94 | 0.94 | 0.00 | 0.95 | 0.93 | 0.93 | 0.96 |
40
+ | epithelial cell | 162 | 0.98 | 0.96 | 0.98 | 0.99 | 0.00 | 0.98 | 0.98 | 0.98 | 0.99 |
41
+ | CD8-positive, alpha-beta T cell | 161 | 0.70 | 0.73 | 0.71 | 0.63 | 0.00 | 0.69 | 0.72 | 0.75 | 0.73 |
42
+ | macrophage | 112 | 0.80 | 0.19 | 0.81 | 0.47 | 0.00 | 0.75 | 0.77 | 0.78 | 0.82 |
43
+ | monocyte | 115 | 0.89 | 0.88 | 0.89 | 0.82 | 0.00 | 0.79 | 0.84 | 0.80 | 0.89 |
44
+ | mast cell | 102 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 1.00 | 1.00 |
45
+ | neutrophil | 94 | 1.00 | 1.00 | 0.99 | 0.98 | 0.00 | 0.98 | 1.00 | 0.99 | 1.00 |
46
+ | tissue-resident macrophage | 60 | 0.74 | 0.09 | 0.85 | 0.76 | 0.00 | 0.70 | 0.70 | 0.75 | 0.87 |
47
+ | endothelial cell of lymphatic vessel | 58 | 0.98 | 0.97 | 0.97 | 0.92 | 0.00 | 0.94 | 0.97 | 0.93 | 0.97 |
48
+ | regulatory T cell | 22 | 0.36 | 0.00 | 0.24 | 0.06 | 0.00 | 0.45 | 0.69 | 0.89 | 0.48 |
49
+ | natural killer cell | 9 | 0.50 | 0.35 | 0.50 | 0.50 | 0.00 | 0.59 | 0.54 | 0.54 | 0.56 |
50
+ | mature NK T cell | 13 | 0.41 | 0.00 | 0.61 | 0.00 | 0.00 | 0.73 | 0.69 | 0.71 | 0.64 |
51
+ | T cell | 10 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.10 | 0.47 | 0.32 | 0.00 |
52
+ | interstitial cell of Cajal | 5 | 1.00 | 0.00 | 1.00 | 0.73 | 0.00 | 1.00 | 1.00 | 0.91 | 1.00 |
53
+ | smooth muscle cell | 4 | 0.55 | 0.57 | 0.40 | 0.00 | 0.00 | 0.80 | 0.50 | 0.60 | 0.60 |
54
  | enteroendocrine cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
55
 
56
  The train accuracies are computed on the training data.
57
 
58
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
59
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
60
+ | fibroblast | 5900 | 0.97 | 0.95 | 0.99 | 0.98 | 0.00 | 0.96 | 0.97 | 0.97 | 0.99 |
61
+ | CD4-positive, alpha-beta T cell | 5216 | 0.91 | 0.91 | 0.93 | 0.93 | 0.00 | 0.90 | 0.92 | 0.94 | 0.95 |
62
+ | mononuclear phagocyte | 4806 | 0.96 | 0.89 | 0.97 | 0.95 | 0.00 | 0.95 | 0.95 | 0.95 | 0.97 |
63
+ | plasma cell | 3758 | 0.98 | 0.96 | 0.97 | 0.99 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |
64
+ | B cell | 1969 | 0.94 | 0.90 | 0.95 | 0.94 | 0.00 | 0.94 | 0.95 | 0.95 | 0.96 |
65
+ | epithelial cell | 1439 | 0.98 | 0.97 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |
66
+ | CD8-positive, alpha-beta T cell | 1425 | 0.74 | 0.76 | 0.84 | 0.77 | 0.00 | 0.79 | 0.82 | 0.83 | 0.84 |
67
+ | macrophage | 951 | 0.83 | 0.15 | 0.86 | 0.78 | 0.00 | 0.84 | 0.84 | 0.87 | 0.88 |
68
+ | monocyte | 939 | 0.86 | 0.80 | 0.90 | 0.87 | 0.00 | 0.81 | 0.86 | 0.86 | 0.90 |
69
+ | mast cell | 866 | 0.98 | 0.96 | 0.98 | 0.98 | 0.00 | 0.97 | 0.99 | 0.98 | 0.98 |
70
+ | neutrophil | 834 | 0.99 | 0.93 | 0.99 | 0.98 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |
71
+ | tissue-resident macrophage | 587 | 0.74 | 0.05 | 0.88 | 0.87 | 0.00 | 0.72 | 0.76 | 0.81 | 0.89 |
72
+ | endothelial cell of lymphatic vessel | 492 | 0.99 | 0.95 | 0.99 | 0.96 | 0.00 | 0.98 | 0.99 | 0.95 | 0.99 |
73
+ | regulatory T cell | 207 | 0.34 | 0.00 | 0.44 | 0.18 | 0.00 | 0.54 | 0.66 | 0.91 | 0.62 |
74
+ | natural killer cell | 114 | 0.65 | 0.58 | 0.79 | 0.67 | 0.00 | 0.85 | 0.92 | 0.88 | 0.86 |
75
+ | mature NK T cell | 74 | 0.36 | 0.05 | 0.66 | 0.34 | 0.00 | 0.68 | 0.85 | 0.83 | 0.86 |
76
+ | T cell | 66 | 0.00 | 0.00 | 0.14 | 0.08 | 0.00 | 0.44 | 0.76 | 0.74 | 0.86 |
77
+ | interstitial cell of Cajal | 66 | 0.81 | 0.00 | 0.89 | 0.88 | 0.00 | 0.89 | 0.94 | 0.91 | 0.91 |
78
+ | smooth muscle cell | 23 | 0.66 | 0.24 | 0.73 | 0.47 | 0.00 | 0.71 | 0.87 | 0.84 | 0.81 |
79
+ | enteroendocrine cell | 25 | 0.00 | 0.20 | 0.93 | 0.86 | 0.00 | 0.64 | 0.91 | 0.93 | 0.93 |
80
 
81
  </details>
82