Hugging Face's logo

popV
/
tabula_sapiens_Fat

Joblib
popV
biology
genomics
single-cell
anndata_version:0.11.3
python_version:3.11.11
tissue: Fat
Model card Files Community
canergen commited on
Commit
f5c5d83
·
verified ·
1 Parent(s): f9ddbda

Upload README.md with huggingface_hub

Browse files
Files changed (1) hide show
  1. README.md +54 -53
README.md CHANGED
@@ -5,7 +5,8 @@ tags:
5
  - biology
6
  - genomics
7
  - single-cell
8
- - anndata_version:0.11.1
 
9
  - popV
10
  - 'tissue: Fat'
11
  ---
@@ -31,31 +32,31 @@ computed on a 10% random subset of the data that was not used for training.
31
 
32
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
33
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
34
- | fibroblast | 2674 | 0.90 | 0.91 | 0.96 | 0.95 | 0.00 | 0.82 | 0.87 | 0.90 | 0.93 |
35
- | macrophage | 1538 | 0.92 | 0.93 | 0.95 | 0.94 | 0.00 | 0.86 | 0.91 | 0.91 | 0.94 |
36
- | B cell | 1461 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
37
- | CD4-positive, alpha-beta T cell | 1124 | 0.88 | 0.89 | 0.88 | 0.88 | 0.00 | 0.80 | 0.84 | 0.87 | 0.90 |
38
- | endothelial cell | 619 | 0.96 | 0.97 | 0.98 | 0.97 | 0.00 | 0.96 | 0.97 | 0.96 | 0.98 |
39
- | CD8-positive, alpha-beta T cell | 539 | 0.73 | 0.76 | 0.76 | 0.70 | 0.00 | 0.72 | 0.73 | 0.78 | 0.79 |
40
- | mesenchymal stem cell of adipose tissue | 400 | 0.50 | 0.10 | 0.67 | 0.62 | 0.00 | 0.50 | 0.50 | 0.55 | 0.64 |
41
- | neutrophil | 299 | 0.96 | 0.95 | 0.98 | 0.96 | 0.00 | 0.94 | 0.96 | 0.96 | 0.97 |
42
- | smooth muscle cell | 218 | 0.84 | 0.85 | 0.90 | 0.83 | 0.00 | 0.84 | 0.89 | 0.91 | 0.91 |
43
- | myofibroblast cell | 134 | 0.81 | 0.81 | 0.88 | 0.78 | 0.00 | 0.73 | 0.90 | 0.90 | 0.88 |
44
- | natural killer cell | 68 | 0.82 | 0.79 | 0.83 | 0.78 | 0.00 | 0.75 | 0.78 | 0.83 | 0.86 |
45
- | pericyte | 90 | 0.88 | 0.46 | 0.93 | 0.89 | 0.00 | 0.67 | 0.89 | 0.87 | 0.90 |
46
- | monocyte | 84 | 0.64 | 0.77 | 0.72 | 0.72 | 0.00 | 0.67 | 0.72 | 0.71 | 0.77 |
47
- | mature NK T cell | 42 | 0.80 | 0.78 | 0.75 | 0.35 | 0.00 | 0.62 | 0.70 | 0.71 | 0.79 |
48
- | T cell | 31 | 0.35 | 0.38 | 0.54 | 0.45 | 0.00 | 0.19 | 0.26 | 0.32 | 0.45 |
49
- | plasma cell | 36 | 0.79 | 0.88 | 0.89 | 0.90 | 0.00 | 0.81 | 0.94 | 0.87 | 0.92 |
50
- | erythrocyte | 26 | 0.96 | 1.00 | 0.96 | 0.92 | 0.00 | 0.88 | 0.98 | 0.96 | 1.00 |
51
- | muscle cell | 26 | 0.96 | 0.82 | 1.00 | 0.98 | 0.00 | 0.93 | 0.96 | 0.96 | 0.98 |
52
- | leukocyte | 15 | 0.55 | 0.69 | 0.60 | 0.22 | 0.00 | 0.31 | 0.53 | 0.55 | 0.80 |
53
- | mast cell | 7 | 0.70 | 0.88 | 0.86 | 0.88 | 0.00 | 0.14 | 1.00 | 0.70 | 0.88 |
54
- | hematopoietic precursor cell | 6 | 0.11 | 0.00 | 0.55 | 0.57 | 0.00 | 0.24 | 0.48 | 0.40 | 0.59 |
55
- | intermediate monocyte | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 |
56
- | mesenchymal stem cell | 1 | 0.00 | 0.00 | 0.00 | 1.00 | 0.00 | 0.04 | 1.00 | 0.00 | 0.00 |
57
- | myeloid dendritic cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
58
- | classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
59
  | non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
60
  | activated CD4-positive, alpha-beta T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
61
  | platelet | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
@@ -64,33 +65,33 @@ The train accuracies are computed on the training data.
64
 
65
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
66
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
67
- | fibroblast | 23295 | 0.91 | 0.91 | 0.97 | 0.97 | 0.00 | 0.84 | 0.88 | 0.91 | 0.94 |
68
- | macrophage | 13715 | 0.92 | 0.93 | 0.97 | 0.96 | 0.00 | 0.87 | 0.92 | 0.93 | 0.95 |
69
- | B cell | 13308 | 0.99 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
70
- | CD4-positive, alpha-beta T cell | 10357 | 0.89 | 0.90 | 0.92 | 0.91 | 0.00 | 0.83 | 0.87 | 0.89 | 0.91 |
71
- | endothelial cell | 6347 | 0.97 | 0.98 | 0.99 | 0.98 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |
72
- | CD8-positive, alpha-beta T cell | 4663 | 0.73 | 0.76 | 0.83 | 0.78 | 0.00 | 0.74 | 0.76 | 0.80 | 0.81 |
73
- | mesenchymal stem cell of adipose tissue | 3377 | 0.49 | 0.09 | 0.78 | 0.74 | 0.00 | 0.51 | 0.51 | 0.57 | 0.68 |
74
- | neutrophil | 3080 | 0.97 | 0.96 | 0.99 | 0.98 | 0.00 | 0.96 | 0.97 | 0.97 | 0.98 |
75
- | smooth muscle cell | 1742 | 0.88 | 0.85 | 0.97 | 0.89 | 0.00 | 0.95 | 0.92 | 0.93 | 0.96 |
76
- | myofibroblast cell | 932 | 0.85 | 0.79 | 0.95 | 0.82 | 0.00 | 0.95 | 0.93 | 0.92 | 0.96 |
77
- | natural killer cell | 805 | 0.83 | 0.84 | 0.89 | 0.85 | 0.00 | 0.82 | 0.88 | 0.91 | 0.91 |
78
- | pericyte | 774 | 0.89 | 0.29 | 0.95 | 0.93 | 0.00 | 0.70 | 0.91 | 0.90 | 0.93 |
79
- | monocyte | 757 | 0.65 | 0.76 | 0.85 | 0.81 | 0.00 | 0.69 | 0.73 | 0.75 | 0.79 |
80
- | mature NK T cell | 336 | 0.73 | 0.73 | 0.81 | 0.53 | 0.00 | 0.65 | 0.81 | 0.85 | 0.87 |
81
- | T cell | 300 | 0.36 | 0.29 | 0.63 | 0.58 | 0.00 | 0.24 | 0.43 | 0.45 | 0.56 |
82
- | plasma cell | 277 | 0.82 | 0.88 | 0.96 | 0.92 | 0.00 | 0.79 | 0.93 | 0.87 | 0.96 |
83
- | erythrocyte | 256 | 0.98 | 0.92 | 0.97 | 0.94 | 0.00 | 0.97 | 0.99 | 0.97 | 0.98 |
84
- | muscle cell | 237 | 0.98 | 0.61 | 1.00 | 0.99 | 0.00 | 0.95 | 0.99 | 0.99 | 0.99 |
85
- | leukocyte | 153 | 0.60 | 0.70 | 0.82 | 0.48 | 0.00 | 0.51 | 0.77 | 0.68 | 0.82 |
86
- | mast cell | 128 | 0.81 | 0.91 | 0.98 | 0.94 | 0.00 | 0.29 | 0.99 | 0.91 | 0.94 |
87
- | hematopoietic precursor cell | 68 | 0.31 | 0.00 | 0.80 | 0.72 | 0.00 | 0.37 | 0.67 | 0.66 | 0.76 |
88
- | intermediate monocyte | 41 | 0.00 | 0.00 | 0.16 | 0.16 | 0.00 | 0.13 | 0.53 | 0.68 | 0.85 |
89
- | mesenchymal stem cell | 16 | 0.00 | 0.00 | 0.61 | 0.45 | 0.00 | 0.09 | 0.89 | 0.94 | 0.72 |
90
- | myeloid dendritic cell | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 1.00 | 1.00 | 0.40 |
91
- | classical monocyte | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 1.00 | 1.00 | 0.00 |
92
- | non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.11 | 1.00 | 1.00 | 1.00 |
93
- | activated CD4-positive, alpha-beta T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 1.00 | 1.00 | 0.00 |
94
  | platelet | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 |
95
 
96
  </details>
 
5
  - biology
6
  - genomics
7
  - single-cell
8
+ - anndata_version:0.11.3
9
+ - python_version:3.11.11
10
  - popV
11
  - 'tissue: Fat'
12
  ---
 
32
 
33
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
35
+ | fibroblast | 2668 | 0.87 | 0.91 | 0.95 | 0.94 | 0.00 | 0.91 | 0.88 | 0.91 | 0.93 |
36
+ | macrophage | 1557 | 0.92 | 0.93 | 0.95 | 0.94 | 0.00 | 0.86 | 0.92 | 0.92 | 0.94 |
37
+ | B cell | 1451 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
38
+ | CD4-positive, alpha-beta T cell | 1116 | 0.89 | 0.90 | 0.89 | 0.88 | 0.00 | 0.87 | 0.83 | 0.87 | 0.90 |
39
+ | endothelial cell | 627 | 0.96 | 0.97 | 0.97 | 0.97 | 0.00 | 0.95 | 0.97 | 0.97 | 0.97 |
40
+ | CD8-positive, alpha-beta T cell | 535 | 0.73 | 0.77 | 0.76 | 0.70 | 0.00 | 0.73 | 0.72 | 0.76 | 0.79 |
41
+ | mesenchymal stem cell of adipose tissue | 406 | 0.47 | 0.11 | 0.64 | 0.58 | 0.00 | 0.57 | 0.49 | 0.57 | 0.63 |
42
+ | neutrophil | 293 | 0.96 | 0.96 | 0.97 | 0.97 | 0.00 | 0.96 | 0.97 | 0.95 | 0.97 |
43
+ | smooth muscle cell | 213 | 0.83 | 0.86 | 0.91 | 0.82 | 0.00 | 0.87 | 0.88 | 0.89 | 0.90 |
44
+ | myofibroblast cell | 128 | 0.81 | 0.81 | 0.88 | 0.78 | 0.00 | 0.81 | 0.90 | 0.88 | 0.90 |
45
+ | natural killer cell | 71 | 0.81 | 0.81 | 0.85 | 0.77 | 0.00 | 0.75 | 0.77 | 0.79 | 0.84 |
46
+ | pericyte | 96 | 0.89 | 0.59 | 0.92 | 0.89 | 0.00 | 0.74 | 0.82 | 0.85 | 0.91 |
47
+ | monocyte | 83 | 0.66 | 0.75 | 0.79 | 0.73 | 0.00 | 0.57 | 0.70 | 0.69 | 0.78 |
48
+ | mature NK T cell | 45 | 0.77 | 0.76 | 0.79 | 0.43 | 0.00 | 0.73 | 0.68 | 0.67 | 0.80 |
49
+ | T cell | 32 | 0.33 | 0.38 | 0.53 | 0.51 | 0.00 | 0.29 | 0.26 | 0.30 | 0.44 |
50
+ | plasma cell | 36 | 0.69 | 0.93 | 0.85 | 0.85 | 0.00 | 0.71 | 0.94 | 0.83 | 0.95 |
51
+ | erythrocyte | 27 | 0.98 | 1.00 | 0.94 | 0.92 | 0.00 | 0.91 | 0.98 | 0.95 | 0.98 |
52
+ | muscle cell | 22 | 0.96 | 0.90 | 1.00 | 0.98 | 0.00 | 0.94 | 0.96 | 0.94 | 0.96 |
53
+ | leukocyte | 16 | 0.74 | 0.71 | 0.65 | 0.48 | 0.00 | 0.69 | 0.56 | 0.50 | 0.76 |
54
+ | mast cell | 8 | 0.80 | 0.94 | 1.00 | 0.94 | 0.00 | 0.36 | 0.94 | 0.84 | 0.89 |
55
+ | hematopoietic precursor cell | 6 | 0.00 | 0.00 | 0.50 | 0.67 | 0.00 | 0.16 | 0.56 | 0.44 | 0.59 |
56
+ | intermediate monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
57
+ | mesenchymal stem cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 1.00 | 0.00 | 0.00 |
58
+ | myeloid dendritic cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
59
+ | classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
60
  | non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
61
  | activated CD4-positive, alpha-beta T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
62
  | platelet | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
 
65
 
66
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
67
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
68
+ | fibroblast | 23301 | 0.88 | 0.91 | 0.97 | 0.97 | 0.00 | 0.92 | 0.89 | 0.92 | 0.95 |
69
+ | macrophage | 13696 | 0.92 | 0.93 | 0.97 | 0.96 | 0.00 | 0.87 | 0.92 | 0.92 | 0.95 |
70
+ | B cell | 13318 | 0.99 | 0.99 | 1.00 | 1.00 | 0.00 | 0.99 | 0.99 | 0.99 | 0.99 |
71
+ | CD4-positive, alpha-beta T cell | 10365 | 0.89 | 0.89 | 0.93 | 0.91 | 0.00 | 0.88 | 0.87 | 0.89 | 0.92 |
72
+ | endothelial cell | 6339 | 0.97 | 0.98 | 0.99 | 0.98 | 0.00 | 0.97 | 0.98 | 0.97 | 0.98 |
73
+ | CD8-positive, alpha-beta T cell | 4667 | 0.73 | 0.76 | 0.84 | 0.78 | 0.00 | 0.75 | 0.75 | 0.79 | 0.80 |
74
+ | mesenchymal stem cell of adipose tissue | 3371 | 0.47 | 0.08 | 0.78 | 0.76 | 0.00 | 0.60 | 0.52 | 0.60 | 0.69 |
75
+ | neutrophil | 3086 | 0.97 | 0.97 | 0.98 | 0.98 | 0.00 | 0.98 | 0.97 | 0.96 | 0.98 |
76
+ | smooth muscle cell | 1747 | 0.86 | 0.85 | 0.97 | 0.92 | 0.00 | 0.93 | 0.91 | 0.93 | 0.96 |
77
+ | myofibroblast cell | 938 | 0.81 | 0.78 | 0.96 | 0.87 | 0.00 | 0.88 | 0.91 | 0.90 | 0.94 |
78
+ | natural killer cell | 802 | 0.83 | 0.85 | 0.89 | 0.85 | 0.00 | 0.85 | 0.88 | 0.91 | 0.91 |
79
+ | pericyte | 768 | 0.90 | 0.45 | 0.95 | 0.93 | 0.00 | 0.76 | 0.84 | 0.87 | 0.94 |
80
+ | monocyte | 758 | 0.65 | 0.75 | 0.85 | 0.82 | 0.00 | 0.59 | 0.72 | 0.72 | 0.79 |
81
+ | mature NK T cell | 333 | 0.74 | 0.74 | 0.82 | 0.61 | 0.00 | 0.79 | 0.79 | 0.83 | 0.88 |
82
+ | T cell | 299 | 0.38 | 0.28 | 0.63 | 0.57 | 0.00 | 0.37 | 0.40 | 0.44 | 0.55 |
83
+ | plasma cell | 277 | 0.74 | 0.90 | 0.96 | 0.94 | 0.00 | 0.75 | 0.96 | 0.87 | 0.95 |
84
+ | erythrocyte | 255 | 0.98 | 0.93 | 0.98 | 0.95 | 0.00 | 0.94 | 0.99 | 0.96 | 0.98 |
85
+ | muscle cell | 241 | 0.98 | 0.59 | 1.00 | 0.99 | 0.00 | 0.97 | 0.99 | 0.97 | 0.99 |
86
+ | leukocyte | 152 | 0.77 | 0.70 | 0.80 | 0.55 | 0.00 | 0.67 | 0.73 | 0.65 | 0.86 |
87
+ | mast cell | 127 | 0.81 | 0.91 | 0.98 | 0.93 | 0.00 | 0.54 | 0.98 | 0.89 | 0.93 |
88
+ | hematopoietic precursor cell | 68 | 0.28 | 0.00 | 0.82 | 0.79 | 0.00 | 0.27 | 0.76 | 0.63 | 0.78 |
89
+ | intermediate monocyte | 42 | 0.00 | 0.00 | 0.19 | 0.26 | 0.00 | 0.14 | 0.56 | 0.63 | 0.78 |
90
+ | mesenchymal stem cell | 16 | 0.00 | 0.00 | 0.67 | 0.22 | 0.00 | 0.23 | 0.78 | 0.84 | 0.86 |
91
+ | myeloid dendritic cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 1.00 | 0.75 | 0.50 |
92
+ | classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 1.00 | 1.00 | 0.00 |
93
+ | non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 1.00 | 1.00 | 1.00 |
94
+ | activated CD4-positive, alpha-beta T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.29 | 1.00 | 1.00 | 0.00 |
95
  | platelet | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 |
96
 
97
  </details>