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popV
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tabula_sapiens_Bone_Marrow

Joblib
popV
biology
genomics
single-cell
anndata_version:0.11.3
python_version:3.11.11
tissue: Bone_Marrow
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@@ -5,7 +5,8 @@ tags:
5
  - biology
6
  - genomics
7
  - single-cell
8
- - anndata_version:0.11.1
 
9
  - popV
10
  - 'tissue: Bone_Marrow'
11
  ---
@@ -31,60 +32,60 @@ computed on a 10% random subset of the data that was not used for training.
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32
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
33
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
34
- | neutrophil | 888 | 0.97 | 0.96 | 0.97 | 0.95 | 0.00 | 0.85 | 0.95 | 0.95 | 0.98 |
35
- | CD4-positive, alpha-beta T cell | 298 | 0.83 | 0.87 | 0.84 | 0.83 | 0.00 | 0.84 | 0.86 | 0.89 | 0.87 |
36
- | CD8-positive, alpha-beta T cell | 245 | 0.80 | 0.86 | 0.83 | 0.79 | 0.00 | 0.82 | 0.82 | 0.87 | 0.85 |
37
- | monocyte | 237 | 0.78 | 0.81 | 0.82 | 0.79 | 0.00 | 0.75 | 0.66 | 0.79 | 0.82 |
38
- | B cell | 191 | 0.99 | 0.99 | 0.98 | 0.99 | 0.00 | 0.99 | 0.99 | 0.98 | 0.99 |
39
- | hematopoietic precursor cell | 170 | 0.80 | 0.82 | 0.84 | 0.82 | 0.00 | 0.75 | 0.82 | 0.84 | 0.86 |
40
- | plasma cell | 135 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 1.00 | 1.00 | 1.00 | 1.00 |
41
- | natural killer cell | 100 | 0.94 | 0.95 | 0.97 | 0.92 | 0.00 | 0.94 | 0.92 | 0.95 | 0.96 |
42
- | erythroid progenitor cell | 100 | 0.70 | 0.73 | 0.70 | 0.68 | 0.00 | 0.72 | 0.80 | 0.84 | 0.81 |
43
- | hematopoietic stem cell | 79 | 0.76 | 0.82 | 0.83 | 0.77 | 0.00 | 0.84 | 0.77 | 0.85 | 0.86 |
44
- | granulocyte | 61 | 0.68 | 0.33 | 0.64 | 0.38 | 0.00 | 0.28 | 0.63 | 0.64 | 0.75 |
45
- | erythrocyte | 46 | 0.51 | 0.58 | 0.63 | 0.51 | 0.00 | 0.64 | 0.79 | 0.77 | 0.66 |
46
- | common myeloid progenitor | 51 | 0.71 | 0.75 | 0.63 | 0.67 | 0.00 | 0.73 | 0.76 | 0.81 | 0.84 |
47
- | macrophage | 37 | 0.61 | 0.52 | 0.74 | 0.39 | 0.00 | 0.70 | 0.67 | 0.72 | 0.77 |
48
- | classical monocyte | 21 | 0.00 | 0.09 | 0.21 | 0.10 | 0.00 | 0.22 | 0.11 | 0.25 | 0.07 |
49
- | intermediate monocyte | 19 | 0.47 | 0.49 | 0.42 | 0.27 | 0.00 | 0.30 | 0.38 | 0.51 | 0.53 |
50
- | myeloid dendritic cell | 6 | 0.48 | 0.22 | 0.55 | 0.62 | 0.00 | 0.31 | 0.40 | 0.45 | 0.60 |
51
- | T cell | 12 | 0.72 | 0.50 | 0.60 | 0.40 | 0.00 | 0.42 | 0.69 | 0.63 | 0.74 |
52
- | mature NK T cell | 6 | 0.00 | 0.29 | 0.50 | 0.00 | 0.00 | 0.36 | 0.29 | 0.22 | 0.29 |
53
- | non-classical monocyte | 6 | 0.00 | 0.50 | 0.00 | 0.25 | 0.00 | 0.60 | 0.25 | 0.33 | 0.50 |
54
  | basophil | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
55
- | regulatory T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 0.00 |
56
- | fibroblast | 1 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 | 0.67 | 0.00 | 0.00 | 1.00 |
57
- | plasmacytoid dendritic cell | 2 | 0.00 | 0.00 | 0.00 | 0.50 | 0.00 | 0.67 | 0.00 | 1.00 | 0.67 |
58
  | endothelial cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
59
 
60
  The train accuracies are computed on the training data.
61
 
62
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
63
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
64
- | neutrophil | 7789 | 0.97 | 0.96 | 0.98 | 0.97 | 0.00 | 0.93 | 0.96 | 0.96 | 0.98 |
65
- | CD4-positive, alpha-beta T cell | 2875 | 0.85 | 0.86 | 0.90 | 0.88 | 0.00 | 0.87 | 0.89 | 0.91 | 0.90 |
66
- | CD8-positive, alpha-beta T cell | 2391 | 0.83 | 0.84 | 0.89 | 0.84 | 0.00 | 0.83 | 0.86 | 0.89 | 0.88 |
67
- | monocyte | 1803 | 0.77 | 0.80 | 0.86 | 0.85 | 0.00 | 0.79 | 0.82 | 0.88 | 0.89 |
68
  | B cell | 1628 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
69
- | hematopoietic precursor cell | 1550 | 0.83 | 0.86 | 0.92 | 0.91 | 0.00 | 0.81 | 0.87 | 0.91 | 0.93 |
70
- | plasma cell | 1313 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 1.00 | 0.99 | 1.00 |
71
- | natural killer cell | 999 | 0.93 | 0.94 | 0.95 | 0.91 | 0.00 | 0.95 | 0.96 | 0.96 | 0.98 |
72
- | erythroid progenitor cell | 871 | 0.72 | 0.75 | 0.84 | 0.83 | 0.00 | 0.88 | 0.92 | 0.95 | 0.94 |
73
- | hematopoietic stem cell | 713 | 0.78 | 0.83 | 0.89 | 0.89 | 0.00 | 0.89 | 0.94 | 0.95 | 0.94 |
74
- | granulocyte | 574 | 0.70 | 0.25 | 0.78 | 0.63 | 0.00 | 0.54 | 0.70 | 0.70 | 0.85 |
75
- | erythrocyte | 407 | 0.64 | 0.66 | 0.82 | 0.77 | 0.00 | 0.88 | 0.96 | 0.96 | 0.93 |
76
- | common myeloid progenitor | 402 | 0.62 | 0.66 | 0.78 | 0.80 | 0.00 | 0.83 | 0.90 | 0.94 | 0.92 |
77
- | macrophage | 321 | 0.59 | 0.52 | 0.75 | 0.70 | 0.00 | 0.81 | 0.91 | 0.94 | 0.93 |
78
- | classical monocyte | 210 | 0.00 | 0.00 | 0.40 | 0.42 | 0.00 | 0.55 | 0.71 | 0.79 | 0.71 |
79
- | intermediate monocyte | 205 | 0.42 | 0.44 | 0.65 | 0.62 | 0.00 | 0.72 | 0.88 | 0.94 | 0.84 |
80
- | myeloid dendritic cell | 102 | 0.62 | 0.51 | 0.74 | 0.73 | 0.00 | 0.58 | 0.79 | 0.86 | 0.86 |
81
- | T cell | 86 | 0.51 | 0.25 | 0.49 | 0.50 | 0.00 | 0.44 | 0.70 | 0.71 | 0.74 |
82
- | mature NK T cell | 58 | 0.00 | 0.44 | 0.47 | 0.15 | 0.00 | 0.73 | 0.95 | 0.96 | 0.94 |
83
- | non-classical monocyte | 47 | 0.00 | 0.27 | 0.42 | 0.46 | 0.00 | 0.89 | 0.97 | 0.95 | 0.91 |
84
- | basophil | 23 | 0.00 | 0.00 | 0.63 | 0.64 | 0.00 | 0.44 | 0.82 | 0.75 | 0.79 |
85
- | regulatory T cell | 13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.43 | 0.87 | 0.76 | 0.14 |
86
- | fibroblast | 10 | 0.00 | 0.39 | 0.58 | 0.33 | 0.00 | 0.56 | 1.00 | 0.95 | 0.86 |
87
- | plasmacytoid dendritic cell | 7 | 0.00 | 0.00 | 0.67 | 0.31 | 0.00 | 0.36 | 0.82 | 0.78 | 0.78 |
88
  | endothelial cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.86 | 1.00 | 1.00 | 0.50 |
89
 
90
  </details>
 
5
  - biology
6
  - genomics
7
  - single-cell
8
+ - anndata_version:0.11.3
9
+ - python_version:3.11.11
10
  - popV
11
  - 'tissue: Bone_Marrow'
12
  ---
 
32
 
33
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
35
+ | neutrophil | 882 | 0.97 | 0.97 | 0.97 | 0.96 | 0.00 | 0.93 | 0.95 | 0.95 | 0.98 |
36
+ | CD4-positive, alpha-beta T cell | 298 | 0.84 | 0.84 | 0.84 | 0.83 | 0.00 | 0.81 | 0.86 | 0.90 | 0.88 |
37
+ | CD8-positive, alpha-beta T cell | 257 | 0.82 | 0.82 | 0.82 | 0.80 | 0.00 | 0.80 | 0.85 | 0.87 | 0.86 |
38
+ | monocyte | 234 | 0.77 | 0.79 | 0.81 | 0.79 | 0.00 | 0.64 | 0.71 | 0.79 | 0.82 |
39
+ | B cell | 191 | 0.98 | 0.98 | 0.98 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
40
+ | hematopoietic precursor cell | 165 | 0.76 | 0.82 | 0.85 | 0.80 | 0.00 | 0.78 | 0.83 | 0.86 | 0.86 |
41
+ | plasma cell | 143 | 0.99 | 0.99 | 0.98 | 0.99 | 0.00 | 0.99 | 0.99 | 1.00 | 0.99 |
42
+ | natural killer cell | 107 | 0.92 | 0.94 | 0.96 | 0.90 | 0.00 | 0.89 | 0.96 | 0.96 | 0.96 |
43
+ | erythroid progenitor cell | 93 | 0.74 | 0.74 | 0.68 | 0.69 | 0.00 | 0.74 | 0.83 | 0.84 | 0.80 |
44
+ | hematopoietic stem cell | 79 | 0.73 | 0.81 | 0.82 | 0.79 | 0.00 | 0.76 | 0.82 | 0.89 | 0.85 |
45
+ | granulocyte | 62 | 0.67 | 0.33 | 0.63 | 0.35 | 0.00 | 0.47 | 0.68 | 0.60 | 0.77 |
46
+ | erythrocyte | 45 | 0.58 | 0.61 | 0.67 | 0.58 | 0.00 | 0.68 | 0.85 | 0.78 | 0.76 |
47
+ | common myeloid progenitor | 48 | 0.65 | 0.75 | 0.64 | 0.62 | 0.00 | 0.73 | 0.75 | 0.84 | 0.77 |
48
+ | macrophage | 33 | 0.67 | 0.48 | 0.73 | 0.55 | 0.00 | 0.54 | 0.61 | 0.72 | 0.72 |
49
+ | classical monocyte | 18 | 0.00 | 0.00 | 0.12 | 0.06 | 0.00 | 0.22 | 0.21 | 0.38 | 0.15 |
50
+ | intermediate monocyte | 21 | 0.47 | 0.39 | 0.41 | 0.29 | 0.00 | 0.29 | 0.36 | 0.36 | 0.48 |
51
+ | myeloid dendritic cell | 6 | 0.40 | 0.20 | 0.40 | 0.53 | 0.00 | 0.33 | 0.33 | 0.71 | 0.62 |
52
+ | T cell | 13 | 0.55 | 0.27 | 0.48 | 0.20 | 0.00 | 0.39 | 0.76 | 0.73 | 0.80 |
53
+ | mature NK T cell | 8 | 0.00 | 0.40 | 0.40 | 0.20 | 0.00 | 0.33 | 0.36 | 0.40 | 0.40 |
54
+ | non-classical monocyte | 7 | 0.00 | 0.44 | 0.00 | 0.25 | 0.00 | 0.31 | 0.20 | 0.46 | 0.25 |
55
  | basophil | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
56
+ | regulatory T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
57
+ | fibroblast | 1 | 0.00 | 1.00 | 1.00 | 0.50 | 0.00 | 0.50 | 0.00 | 0.00 | 1.00 |
58
+ | plasmacytoid dendritic cell | 1 | 0.00 | 0.00 | 1.00 | 0.00 | 0.00 | 0.40 | 0.00 | 1.00 | 1.00 |
59
  | endothelial cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
60
 
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 | 7795 | 0.97 | 0.96 | 0.98 | 0.97 | 0.00 | 0.96 | 0.96 | 0.95 | 0.98 |
66
+ | CD4-positive, alpha-beta T cell | 2875 | 0.86 | 0.86 | 0.90 | 0.87 | 0.00 | 0.84 | 0.90 | 0.92 | 0.90 |
67
+ | CD8-positive, alpha-beta T cell | 2379 | 0.83 | 0.84 | 0.88 | 0.83 | 0.00 | 0.83 | 0.87 | 0.89 | 0.88 |
68
+ | monocyte | 1806 | 0.77 | 0.80 | 0.87 | 0.85 | 0.00 | 0.73 | 0.82 | 0.86 | 0.90 |
69
  | B cell | 1628 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
70
+ | hematopoietic precursor cell | 1555 | 0.80 | 0.85 | 0.92 | 0.89 | 0.00 | 0.86 | 0.90 | 0.91 | 0.93 |
71
+ | plasma cell | 1305 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
72
+ | natural killer cell | 992 | 0.93 | 0.94 | 0.96 | 0.90 | 0.00 | 0.93 | 0.96 | 0.96 | 0.97 |
73
+ | erythroid progenitor cell | 878 | 0.71 | 0.74 | 0.83 | 0.84 | 0.00 | 0.88 | 0.93 | 0.95 | 0.94 |
74
+ | hematopoietic stem cell | 713 | 0.75 | 0.83 | 0.89 | 0.87 | 0.00 | 0.83 | 0.94 | 0.96 | 0.93 |
75
+ | granulocyte | 573 | 0.72 | 0.25 | 0.76 | 0.60 | 0.00 | 0.67 | 0.70 | 0.70 | 0.84 |
76
+ | erythrocyte | 408 | 0.62 | 0.66 | 0.80 | 0.81 | 0.00 | 0.89 | 0.95 | 0.95 | 0.94 |
77
+ | common myeloid progenitor | 405 | 0.64 | 0.66 | 0.76 | 0.78 | 0.00 | 0.78 | 0.92 | 0.95 | 0.91 |
78
+ | macrophage | 325 | 0.58 | 0.54 | 0.75 | 0.73 | 0.00 | 0.83 | 0.91 | 0.92 | 0.93 |
79
+ | classical monocyte | 213 | 0.00 | 0.01 | 0.41 | 0.39 | 0.00 | 0.46 | 0.76 | 0.80 | 0.75 |
80
+ | intermediate monocyte | 203 | 0.41 | 0.48 | 0.69 | 0.60 | 0.00 | 0.71 | 0.89 | 0.92 | 0.85 |
81
+ | myeloid dendritic cell | 102 | 0.57 | 0.50 | 0.70 | 0.72 | 0.00 | 0.74 | 0.75 | 0.81 | 0.82 |
82
+ | T cell | 85 | 0.43 | 0.10 | 0.39 | 0.38 | 0.00 | 0.45 | 0.72 | 0.72 | 0.75 |
83
+ | mature NK T cell | 56 | 0.00 | 0.39 | 0.51 | 0.15 | 0.00 | 0.53 | 0.94 | 0.90 | 0.95 |
84
+ | non-classical monocyte | 46 | 0.00 | 0.18 | 0.54 | 0.38 | 0.00 | 0.80 | 0.98 | 0.95 | 0.85 |
85
+ | basophil | 23 | 0.00 | 0.08 | 0.54 | 0.61 | 0.00 | 0.41 | 0.85 | 0.77 | 0.78 |
86
+ | regulatory T cell | 14 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.37 | 0.88 | 0.82 | 0.12 |
87
+ | fibroblast | 10 | 0.00 | 0.48 | 0.67 | 0.40 | 0.00 | 0.32 | 0.87 | 0.87 | 0.82 |
88
+ | plasmacytoid dendritic cell | 8 | 0.00 | 0.52 | 0.53 | 0.47 | 0.00 | 0.29 | 0.80 | 0.73 | 0.70 |
89
  | endothelial cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.86 | 1.00 | 1.00 | 0.50 |
90
 
91
  </details>