Upload README.md with huggingface_hub
Browse files
README.md
CHANGED
@@ -5,7 +5,8 @@ tags:
|
|
5 |
- biology
|
6 |
- genomics
|
7 |
- single-cell
|
8 |
-
- anndata_version:0.11.
|
|
|
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 |
|
35 |
-
| macrophage |
|
36 |
-
| B cell |
|
37 |
-
| CD4-positive, alpha-beta T cell |
|
38 |
-
| endothelial cell |
|
39 |
-
| CD8-positive, alpha-beta T cell |
|
40 |
-
| mesenchymal stem cell of adipose tissue |
|
41 |
-
| neutrophil |
|
42 |
-
| smooth muscle cell |
|
43 |
-
| myofibroblast cell |
|
44 |
-
| natural killer cell |
|
45 |
-
| pericyte |
|
46 |
-
| monocyte |
|
47 |
-
| mature NK T cell |
|
48 |
-
| T cell |
|
49 |
-
| plasma cell | 36 | 0.
|
50 |
-
| erythrocyte |
|
51 |
-
| muscle cell |
|
52 |
-
| leukocyte |
|
53 |
-
| mast cell |
|
54 |
-
| hematopoietic precursor cell | 6 | 0.
|
55 |
-
| intermediate monocyte |
|
56 |
-
| mesenchymal stem cell | 1 | 0.00 | 0.00 | 0.00 |
|
57 |
-
| myeloid dendritic cell |
|
58 |
-
| classical monocyte |
|
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 |
|
68 |
-
| macrophage |
|
69 |
-
| B cell |
|
70 |
-
| CD4-positive, alpha-beta T cell |
|
71 |
-
| endothelial cell |
|
72 |
-
| CD8-positive, alpha-beta T cell |
|
73 |
-
| mesenchymal stem cell of adipose tissue |
|
74 |
-
| neutrophil |
|
75 |
-
| smooth muscle cell |
|
76 |
-
| myofibroblast cell |
|
77 |
-
| natural killer cell |
|
78 |
-
| pericyte |
|
79 |
-
| monocyte |
|
80 |
-
| mature NK T cell |
|
81 |
-
| T cell |
|
82 |
-
| plasma cell | 277 | 0.
|
83 |
-
| erythrocyte |
|
84 |
-
| muscle cell |
|
85 |
-
| leukocyte |
|
86 |
-
| mast cell |
|
87 |
-
| hematopoietic precursor cell | 68 | 0.
|
88 |
-
| intermediate monocyte |
|
89 |
-
| mesenchymal stem cell | 16 | 0.00 | 0.00 | 0.
|
90 |
-
| myeloid dendritic cell |
|
91 |
-
| classical monocyte |
|
92 |
-
| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.
|
93 |
-
| activated CD4-positive, alpha-beta T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.
|
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>
|