Hugging Face's logo

popV
/
tabula_sapiens_Muscle

Joblib
popV
biology
genomics
single-cell
anndata_version:0.11.3
python_version:3.11.11
tissue: Muscle
Model card Files Community
canergen commited on
Commit
89eae02
·
verified ·
1 Parent(s): b07938a

Upload README.md with huggingface_hub

Browse files
Files changed (1) hide show
  1. README.md +55 -54
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: Muscle'
11
  ---
@@ -32,32 +33,32 @@ computed on a 10% random subset of the data that was not used for training.
32
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
33
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
34
  | mesenchymal stem cell | 2349 | 0.98 | 0.98 | 0.99 | 0.98 | 0.00 | 0.93 | 0.97 | 0.97 | 0.99 |
35
- | skeletal muscle satellite stem cell | 595 | 0.96 | 0.97 | 0.97 | 0.97 | 0.00 | 0.97 | 0.97 | 0.97 | 0.98 |
36
- | endothelial cell | 358 | 0.95 | 0.95 | 0.93 | 0.94 | 0.00 | 0.95 | 0.95 | 0.95 | 0.96 |
37
- | capillary endothelial cell | 336 | 0.92 | 0.92 | 0.91 | 0.90 | 0.00 | 0.90 | 0.88 | 0.89 | 0.92 |
38
- | macrophage | 275 | 0.96 | 0.96 | 0.96 | 0.95 | 0.00 | 0.88 | 0.94 | 0.94 | 0.96 |
39
- | pericyte | 249 | 0.88 | 0.91 | 0.90 | 0.88 | 0.00 | 0.84 | 0.87 | 0.90 | 0.91 |
40
- | CD8-positive, alpha-beta T cell | 148 | 0.66 | 0.77 | 0.78 | 0.70 | 0.00 | 0.72 | 0.69 | 0.75 | 0.78 |
41
- | endothelial cell of vascular tree | 70 | 0.90 | 0.89 | 0.75 | 0.86 | 0.00 | 0.88 | 0.83 | 0.82 | 0.90 |
42
- | CD4-positive, alpha-beta T cell | 44 | 0.44 | 0.45 | 0.34 | 0.23 | 0.00 | 0.47 | 0.43 | 0.50 | 0.47 |
43
- | fast muscle cell | 53 | 0.86 | 0.90 | 0.90 | 0.68 | 0.00 | 0.92 | 0.90 | 0.93 | 0.91 |
44
- | tendon cell | 36 | 0.69 | 0.82 | 0.79 | 0.68 | 0.00 | 0.31 | 0.54 | 0.54 | 0.81 |
45
- | smooth muscle cell | 20 | 0.27 | 0.48 | 0.22 | 0.25 | 0.00 | 0.37 | 0.54 | 0.57 | 0.54 |
46
- | endothelial cell of artery | 18 | 0.86 | 0.94 | 0.88 | 0.76 | 0.00 | 0.80 | 0.82 | 0.83 | 0.97 |
47
- | neutrophil | 24 | 0.76 | 0.82 | 0.82 | 0.58 | 0.00 | 0.71 | 0.78 | 0.80 | 0.80 |
48
- | slow muscle cell | 17 | 0.76 | 0.80 | 0.74 | 0.36 | 0.00 | 0.78 | 0.80 | 0.82 | 0.80 |
49
- | endothelial cell of lymphatic vessel | 10 | 0.76 | 0.84 | 0.80 | 0.73 | 0.00 | 0.70 | 0.80 | 0.73 | 0.80 |
50
- | erythrocyte | 15 | 0.38 | 0.40 | 0.93 | 0.75 | 0.00 | 0.46 | 0.67 | 0.60 | 0.79 |
51
- | T cell | 15 | 0.00 | 0.12 | 0.24 | 0.00 | 0.00 | 0.14 | 0.36 | 0.41 | 0.24 |
52
- | mature NK T cell | 7 | 0.31 | 0.00 | 0.18 | 0.00 | 0.00 | 0.24 | 0.31 | 0.29 | 0.36 |
53
- | granulocyte | 6 | 0.60 | 0.00 | 0.59 | 0.47 | 0.00 | 0.32 | 0.63 | 0.62 | 0.71 |
54
- | natural killer cell | 5 | 0.50 | 0.40 | 0.33 | 0.00 | 0.00 | 0.43 | 0.50 | 0.73 | 0.36 |
55
- | mast cell | 4 | 0.42 | 0.62 | 0.57 | 0.50 | 0.00 | 0.57 | 0.57 | 0.62 | 0.50 |
56
- | epithelial cell | 7 | 0.55 | 0.36 | 0.60 | 0.40 | 0.00 | 0.30 | 0.55 | 0.55 | 0.55 |
57
- | B cell | 7 | 0.53 | 0.73 | 0.73 | 0.22 | 0.00 | 0.77 | 0.92 | 0.83 | 0.83 |
58
- | monocyte | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.20 | 0.36 | 0.00 |
59
- | basophil | 3 | 0.00 | 0.00 | 0.40 | 0.00 | 0.00 | 0.50 | 0.00 | 0.80 | 0.00 |
60
- | myeloid dendritic cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.40 | 0.50 | 0.40 | 0.00 |
61
  | plasma cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
62
  | non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
63
  | intermediate monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
@@ -67,36 +68,36 @@ The train accuracies are computed on the training data.
67
 
68
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
69
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
70
- | mesenchymal stem cell | 21131 | 0.98 | 0.98 | 0.99 | 0.99 | 0.00 | 0.93 | 0.97 | 0.97 | 0.99 |
71
  | skeletal muscle satellite stem cell | 5555 | 0.97 | 0.98 | 0.98 | 0.98 | 0.00 | 0.97 | 0.98 | 0.98 | 0.98 |
72
  | endothelial cell | 3168 | 0.92 | 0.93 | 0.95 | 0.95 | 0.00 | 0.94 | 0.94 | 0.94 | 0.95 |
73
- | capillary endothelial cell | 2954 | 0.89 | 0.90 | 0.93 | 0.91 | 0.00 | 0.89 | 0.90 | 0.91 | 0.93 |
74
  | macrophage | 2454 | 0.96 | 0.96 | 0.97 | 0.96 | 0.00 | 0.89 | 0.96 | 0.96 | 0.97 |
75
- | pericyte | 2137 | 0.90 | 0.90 | 0.93 | 0.93 | 0.00 | 0.91 | 0.92 | 0.93 | 0.94 |
76
- | CD8-positive, alpha-beta T cell | 1269 | 0.66 | 0.76 | 0.85 | 0.80 | 0.00 | 0.81 | 0.84 | 0.89 | 0.88 |
77
- | endothelial cell of vascular tree | 653 | 0.89 | 0.89 | 0.89 | 0.90 | 0.00 | 0.89 | 0.89 | 0.89 | 0.92 |
78
- | CD4-positive, alpha-beta T cell | 470 | 0.51 | 0.50 | 0.64 | 0.53 | 0.00 | 0.67 | 0.78 | 0.81 | 0.77 |
79
- | fast muscle cell | 421 | 0.94 | 0.96 | 0.95 | 0.90 | 0.00 | 0.94 | 0.96 | 0.95 | 0.97 |
80
- | tendon cell | 384 | 0.73 | 0.76 | 0.84 | 0.71 | 0.00 | 0.37 | 0.59 | 0.61 | 0.82 |
81
- | smooth muscle cell | 198 | 0.46 | 0.46 | 0.54 | 0.66 | 0.00 | 0.68 | 0.79 | 0.81 | 0.88 |
82
- | endothelial cell of artery | 162 | 0.78 | 0.83 | 0.89 | 0.75 | 0.00 | 0.75 | 0.85 | 0.84 | 0.91 |
83
- | neutrophil | 150 | 0.77 | 0.81 | 0.88 | 0.78 | 0.00 | 0.80 | 0.94 | 0.96 | 0.96 |
84
- | slow muscle cell | 157 | 0.92 | 0.93 | 0.92 | 0.77 | 0.00 | 0.90 | 0.98 | 0.99 | 0.95 |
85
- | endothelial cell of lymphatic vessel | 145 | 0.89 | 0.88 | 0.91 | 0.92 | 0.00 | 0.94 | 0.92 | 0.91 | 0.92 |
86
- | erythrocyte | 109 | 0.45 | 0.27 | 0.93 | 0.85 | 0.00 | 0.45 | 0.70 | 0.69 | 0.89 |
87
- | T cell | 93 | 0.00 | 0.06 | 0.34 | 0.24 | 0.00 | 0.65 | 0.90 | 0.86 | 0.88 |
88
- | mature NK T cell | 91 | 0.49 | 0.06 | 0.49 | 0.29 | 0.00 | 0.42 | 0.82 | 0.87 | 0.84 |
89
- | granulocyte | 88 | 0.71 | 0.00 | 0.80 | 0.71 | 0.00 | 0.44 | 0.72 | 0.93 | 0.95 |
90
- | natural killer cell | 86 | 0.62 | 0.41 | 0.49 | 0.31 | 0.00 | 0.79 | 0.86 | 0.84 | 0.86 |
91
- | mast cell | 62 | 0.70 | 0.70 | 0.81 | 0.85 | 0.00 | 0.93 | 0.95 | 0.94 | 0.87 |
92
- | epithelial cell | 50 | 0.67 | 0.12 | 0.73 | 0.67 | 0.00 | 0.44 | 0.87 | 0.85 | 0.79 |
93
- | B cell | 42 | 0.63 | 0.81 | 0.92 | 0.65 | 0.00 | 0.98 | 0.99 | 0.99 | 0.98 |
94
- | monocyte | 28 | 0.00 | 0.07 | 0.12 | 0.19 | 0.00 | 0.19 | 0.74 | 0.74 | 0.30 |
95
- | basophil | 8 | 0.00 | 0.00 | 0.17 | 0.55 | 0.00 | 0.76 | 1.00 | 0.94 | 0.86 |
96
- | myeloid dendritic cell | 7 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.21 | 1.00 | 0.67 | 0.00 |
97
- | plasma cell | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.80 | 0.89 | 0.89 | 1.00 |
98
- | non-classical monocyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 0.75 | 0.86 | 0.80 |
99
- | intermediate monocyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.27 | 1.00 | 1.00 | 0.00 |
100
  | mesenchymal cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.80 | 0.80 | 0.00 |
101
 
102
  </details>
 
5
  - biology
6
  - genomics
7
  - single-cell
8
+ - anndata_version:0.11.3
9
+ - python_version:3.11.11
10
  - popV
11
  - 'tissue: Muscle'
12
  ---
 
33
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
34
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
35
  | mesenchymal stem cell | 2349 | 0.98 | 0.98 | 0.99 | 0.98 | 0.00 | 0.93 | 0.97 | 0.97 | 0.99 |
36
+ | skeletal muscle satellite stem cell | 595 | 0.96 | 0.97 | 0.97 | 0.97 | 0.00 | 0.97 | 0.97 | 0.97 | 0.97 |
37
+ | endothelial cell | 358 | 0.95 | 0.95 | 0.93 | 0.95 | 0.00 | 0.95 | 0.95 | 0.95 | 0.96 |
38
+ | capillary endothelial cell | 336 | 0.92 | 0.92 | 0.91 | 0.89 | 0.00 | 0.89 | 0.88 | 0.89 | 0.92 |
39
+ | macrophage | 275 | 0.96 | 0.96 | 0.96 | 0.97 | 0.00 | 0.88 | 0.94 | 0.94 | 0.96 |
40
+ | pericyte | 249 | 0.88 | 0.91 | 0.90 | 0.86 | 0.00 | 0.83 | 0.88 | 0.90 | 0.91 |
41
+ | CD8-positive, alpha-beta T cell | 148 | 0.66 | 0.77 | 0.78 | 0.76 | 0.00 | 0.71 | 0.70 | 0.75 | 0.79 |
42
+ | endothelial cell of vascular tree | 70 | 0.90 | 0.89 | 0.74 | 0.82 | 0.00 | 0.86 | 0.83 | 0.82 | 0.89 |
43
+ | CD4-positive, alpha-beta T cell | 44 | 0.44 | 0.45 | 0.36 | 0.31 | 0.00 | 0.52 | 0.43 | 0.50 | 0.50 |
44
+ | fast muscle cell | 53 | 0.86 | 0.90 | 0.90 | 0.80 | 0.00 | 0.87 | 0.86 | 0.93 | 0.90 |
45
+ | tendon cell | 36 | 0.69 | 0.82 | 0.79 | 0.33 | 0.00 | 0.28 | 0.54 | 0.54 | 0.80 |
46
+ | smooth muscle cell | 20 | 0.27 | 0.48 | 0.34 | 0.19 | 0.00 | 0.36 | 0.56 | 0.57 | 0.61 |
47
+ | endothelial cell of artery | 18 | 0.86 | 0.94 | 0.88 | 0.89 | 0.00 | 0.74 | 0.82 | 0.83 | 0.97 |
48
+ | neutrophil | 24 | 0.76 | 0.82 | 0.82 | 0.71 | 0.00 | 0.75 | 0.78 | 0.80 | 0.79 |
49
+ | slow muscle cell | 17 | 0.76 | 0.80 | 0.78 | 0.55 | 0.00 | 0.64 | 0.78 | 0.82 | 0.78 |
50
+ | endothelial cell of lymphatic vessel | 10 | 0.76 | 0.84 | 0.80 | 0.67 | 0.00 | 0.67 | 0.80 | 0.73 | 0.80 |
51
+ | erythrocyte | 15 | 0.38 | 0.40 | 0.93 | 0.74 | 0.00 | 0.84 | 0.59 | 0.60 | 0.81 |
52
+ | T cell | 15 | 0.00 | 0.12 | 0.24 | 0.00 | 0.00 | 0.23 | 0.36 | 0.41 | 0.12 |
53
+ | mature NK T cell | 7 | 0.31 | 0.00 | 0.18 | 0.00 | 0.00 | 0.25 | 0.29 | 0.29 | 0.36 |
54
+ | granulocyte | 6 | 0.60 | 0.00 | 0.56 | 0.36 | 0.00 | 0.20 | 0.60 | 0.62 | 0.67 |
55
+ | natural killer cell | 5 | 0.50 | 0.40 | 0.33 | 0.57 | 0.00 | 0.62 | 0.50 | 0.73 | 0.50 |
56
+ | mast cell | 4 | 0.42 | 0.62 | 0.62 | 0.57 | 0.00 | 0.57 | 0.53 | 0.62 | 0.53 |
57
+ | epithelial cell | 7 | 0.55 | 0.36 | 0.44 | 0.73 | 0.00 | 0.33 | 0.55 | 0.55 | 0.55 |
58
+ | B cell | 7 | 0.53 | 0.73 | 0.73 | 0.62 | 0.00 | 0.44 | 0.92 | 0.83 | 0.73 |
59
+ | monocyte | 4 | 0.00 | 0.00 | 0.00 | 0.40 | 0.00 | 0.19 | 0.18 | 0.36 | 0.00 |
60
+ | basophil | 3 | 0.00 | 0.00 | 0.40 | 0.00 | 0.00 | 1.00 | 0.00 | 0.80 | 0.50 |
61
+ | myeloid dendritic cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 0.40 | 0.00 |
62
  | plasma cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
63
  | non-classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
64
  | intermediate monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
 
68
 
69
  | Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |
70
  | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
71
+ | mesenchymal stem cell | 21131 | 0.98 | 0.98 | 0.99 | 0.99 | 0.00 | 0.94 | 0.97 | 0.97 | 0.99 |
72
  | skeletal muscle satellite stem cell | 5555 | 0.97 | 0.98 | 0.98 | 0.98 | 0.00 | 0.97 | 0.98 | 0.98 | 0.98 |
73
  | endothelial cell | 3168 | 0.92 | 0.93 | 0.95 | 0.95 | 0.00 | 0.94 | 0.94 | 0.94 | 0.95 |
74
+ | capillary endothelial cell | 2954 | 0.89 | 0.90 | 0.93 | 0.92 | 0.00 | 0.90 | 0.90 | 0.91 | 0.92 |
75
  | macrophage | 2454 | 0.96 | 0.96 | 0.97 | 0.96 | 0.00 | 0.89 | 0.96 | 0.96 | 0.97 |
76
+ | pericyte | 2137 | 0.90 | 0.90 | 0.93 | 0.93 | 0.00 | 0.89 | 0.92 | 0.93 | 0.94 |
77
+ | CD8-positive, alpha-beta T cell | 1269 | 0.66 | 0.76 | 0.85 | 0.81 | 0.00 | 0.79 | 0.84 | 0.89 | 0.89 |
78
+ | endothelial cell of vascular tree | 653 | 0.89 | 0.89 | 0.89 | 0.90 | 0.00 | 0.91 | 0.88 | 0.89 | 0.92 |
79
+ | CD4-positive, alpha-beta T cell | 470 | 0.51 | 0.50 | 0.63 | 0.53 | 0.00 | 0.63 | 0.78 | 0.81 | 0.78 |
80
+ | fast muscle cell | 421 | 0.94 | 0.96 | 0.95 | 0.92 | 0.00 | 0.94 | 0.93 | 0.95 | 0.96 |
81
+ | tendon cell | 384 | 0.73 | 0.76 | 0.84 | 0.50 | 0.00 | 0.34 | 0.59 | 0.61 | 0.81 |
82
+ | smooth muscle cell | 198 | 0.46 | 0.46 | 0.54 | 0.68 | 0.00 | 0.62 | 0.80 | 0.81 | 0.88 |
83
+ | endothelial cell of artery | 162 | 0.78 | 0.83 | 0.90 | 0.80 | 0.00 | 0.76 | 0.84 | 0.84 | 0.90 |
84
+ | neutrophil | 150 | 0.77 | 0.81 | 0.87 | 0.82 | 0.00 | 0.87 | 0.93 | 0.96 | 0.96 |
85
+ | slow muscle cell | 157 | 0.92 | 0.93 | 0.91 | 0.80 | 0.00 | 0.73 | 0.98 | 0.99 | 0.97 |
86
+ | endothelial cell of lymphatic vessel | 145 | 0.89 | 0.88 | 0.92 | 0.84 | 0.00 | 0.78 | 0.93 | 0.91 | 0.93 |
87
+ | erythrocyte | 109 | 0.45 | 0.27 | 0.93 | 0.88 | 0.00 | 0.77 | 0.74 | 0.69 | 0.91 |
88
+ | T cell | 93 | 0.00 | 0.06 | 0.33 | 0.22 | 0.00 | 0.63 | 0.89 | 0.86 | 0.84 |
89
+ | mature NK T cell | 91 | 0.49 | 0.06 | 0.49 | 0.28 | 0.00 | 0.43 | 0.82 | 0.87 | 0.84 |
90
+ | granulocyte | 88 | 0.71 | 0.00 | 0.79 | 0.67 | 0.00 | 0.44 | 0.73 | 0.93 | 0.96 |
91
+ | natural killer cell | 86 | 0.62 | 0.41 | 0.50 | 0.39 | 0.00 | 0.68 | 0.86 | 0.84 | 0.84 |
92
+ | mast cell | 62 | 0.70 | 0.70 | 0.81 | 0.79 | 0.00 | 0.81 | 0.95 | 0.94 | 0.85 |
93
+ | epithelial cell | 50 | 0.67 | 0.12 | 0.73 | 0.73 | 0.00 | 0.45 | 0.87 | 0.85 | 0.79 |
94
+ | B cell | 42 | 0.63 | 0.81 | 0.93 | 0.78 | 0.00 | 0.78 | 0.99 | 0.99 | 0.96 |
95
+ | monocyte | 28 | 0.00 | 0.07 | 0.12 | 0.32 | 0.00 | 0.16 | 0.72 | 0.74 | 0.44 |
96
+ | basophil | 8 | 0.00 | 0.00 | 0.17 | 0.36 | 0.00 | 0.76 | 1.00 | 0.94 | 0.77 |
97
+ | myeloid dendritic cell | 7 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.56 | 1.00 | 0.67 | 0.00 |
98
+ | plasma cell | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.33 | 1.00 | 0.89 | 1.00 |
99
+ | non-classical monocyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.29 | 0.86 | 0.86 | 0.50 |
100
+ | intermediate monocyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.50 | 1.00 | 1.00 | 0.00 |
101
  | mesenchymal cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.80 | 0.80 | 0.00 |
102
 
103
  </details>