Upload folder using huggingface_hub
Browse files- .gitattributes +1 -0
- OnClass.data-00000-of-00001 +3 -0
- OnClass.index +0 -0
- OnClass.meta +0 -0
- OnClass.npz +3 -0
- accuracies.json +4 -0
- celltypist.pkl +3 -0
- checkpoint +2 -0
- harmony_knn_classifier.joblib +3 -0
- obo_dag.joblib +3 -0
- popv_output/predictions.csv +0 -0
- preprocessing.json +0 -0
- pynndescent_index.joblib +3 -0
- scanvi/model.pt +3 -0
- scvi/model.pt +3 -0
- scvi_knn_classifier.joblib +3 -0
- svm_classifier_cuml.joblib +3 -0
- xgboost_classifier.model +3 -0
.gitattributes
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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OnClass.data-00000-of-00001 filter=lfs diff=lfs merge=lfs -text
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OnClass.data-00000-of-00001
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version https://git-lfs.github.com/spec/v1
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size 27239224
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OnClass.index
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OnClass.meta
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OnClass.npz
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version https://git-lfs.github.com/spec/v1
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accuracies.json
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{
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"query_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| stromal cell of ovary | 3496 | 0.98 | 0.97 | 0.96 | 0.98 | 0.00 | 0.97 | 0.97 | 0.97 | 0.99 |\n| blood vessel smooth muscle cell | 654 | 0.97 | 0.93 | 0.95 | 0.94 | 0.00 | 0.95 | 0.95 | 0.92 | 0.98 |\n| stromal cell | 221 | 0.96 | 0.73 | 0.47 | 0.82 | 0.00 | 0.89 | 0.87 | 0.92 | 0.96 |\n| endothelial cell | 166 | 0.99 | 0.98 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.97 | 0.99 |\n| smooth muscle cell | 106 | 0.94 | 0.60 | 0.69 | 0.77 | 0.00 | 0.89 | 0.93 | 0.90 | 0.96 |\n| theca cell | 122 | 0.72 | 0.73 | 0.89 | 0.82 | 0.00 | 0.70 | 0.74 | 0.73 | 0.84 |\n| macrophage | 57 | 0.96 | 0.96 | 0.96 | 0.90 | 0.00 | 0.95 | 0.95 | 0.94 | 0.96 |\n| ovarian surface epithelial cell | 20 | 0.98 | 0.98 | 0.97 | 0.83 | 0.00 | 0.62 | 0.98 | 0.91 | 0.98 |\n| glandular epithelial cell | 27 | 0.98 | 0.90 | 0.96 | 0.84 | 0.00 | 0.96 | 0.98 | 0.96 | 1.00 |\n| CD8-positive, alpha-beta T cell | 7 | 0.67 | 0.67 | 0.75 | 0.78 | 0.00 | 0.78 | 0.88 | 0.82 | 0.82 |\n| leukocyte | 4 | 0.00 | 0.00 | 0.57 | 0.40 | 0.00 | 0.86 | 0.67 | 0.67 | 0.67 |\n| CD4-positive, alpha-beta T cell | 4 | 0.00 | 0.33 | 0.67 | 0.00 | 0.00 | 0.33 | 0.67 | 0.00 | 0.40 |\n| glial cell | 1 | 0.67 | 0.00 | 0.67 | 0.00 | 0.00 | 0.06 | 0.67 | 0.67 | 0.67 |\n| oocyte | 3 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 | 0.86 | 0.86 | 1.00 | 1.00 |\n| neutrophil | 2 | 0.67 | 1.00 | 0.67 | 0.50 | 0.00 | 0.67 | 1.00 | 1.00 | 1.00 |\n| plasma cell | 4 | 0.33 | 0.67 | 0.86 | 0.33 | 0.00 | 0.30 | 0.40 | 0.67 | 0.67 |\n| epithelial cell | 1 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.00 |\n| plasmacytoid dendritic cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| B cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| classical monocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| mast cell | 1 | 0.00 | 0.00 | 1.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| mature NK T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| myeloid dendritic cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| hematopoietic precursor cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |",
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"ref_accuracy": "| Cell Type | N cells | celltypist | knn bbknn | knn harmony | knn on scvi | onclass | scanvi | svm | xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| stromal cell of ovary | 31507 | 0.98 | 0.97 | 0.98 | 0.99 | 0.00 | 0.97 | 0.97 | 0.97 | 0.99 |\n| blood vessel smooth muscle cell | 5988 | 0.96 | 0.89 | 0.97 | 0.95 | 0.00 | 0.96 | 0.95 | 0.93 | 0.98 |\n| stromal cell | 1938 | 0.97 | 0.72 | 0.72 | 0.91 | 0.00 | 0.95 | 0.89 | 0.93 | 0.98 |\n| endothelial cell | 1558 | 0.99 | 0.98 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| smooth muscle cell | 1165 | 0.96 | 0.55 | 0.85 | 0.84 | 0.00 | 0.95 | 0.96 | 0.96 | 0.98 |\n| theca cell | 916 | 0.68 | 0.60 | 0.93 | 0.86 | 0.00 | 0.68 | 0.72 | 0.69 | 0.80 |\n| macrophage | 347 | 0.95 | 0.91 | 0.96 | 0.92 | 0.00 | 0.96 | 0.97 | 0.98 | 0.98 |\n| ovarian surface epithelial cell | 221 | 0.96 | 0.95 | 0.98 | 0.97 | 0.00 | 0.68 | 0.92 | 0.92 | 0.99 |\n| glandular epithelial cell | 208 | 0.96 | 0.82 | 0.99 | 0.95 | 0.00 | 0.93 | 0.98 | 0.95 | 0.99 |\n| CD8-positive, alpha-beta T cell | 66 | 0.76 | 0.74 | 0.87 | 0.77 | 0.00 | 0.96 | 1.00 | 1.00 | 0.92 |\n| leukocyte | 23 | 0.00 | 0.00 | 0.79 | 0.78 | 0.00 | 0.98 | 1.00 | 1.00 | 1.00 |\n| CD4-positive, alpha-beta T cell | 19 | 0.00 | 0.00 | 0.50 | 0.37 | 0.00 | 0.92 | 1.00 | 1.00 | 0.73 |\n| glial cell | 19 | 0.76 | 0.27 | 0.81 | 0.69 | 0.00 | 0.14 | 0.86 | 0.79 | 0.82 |\n| oocyte | 15 | 0.00 | 0.83 | 0.85 | 0.88 | 0.00 | 0.83 | 0.81 | 0.86 | 0.85 |\n| neutrophil | 15 | 0.60 | 1.00 | 1.00 | 0.75 | 0.00 | 0.88 | 1.00 | 1.00 | 1.00 |\n| plasma cell | 10 | 0.18 | 0.57 | 0.82 | 0.46 | 0.00 | 0.08 | 0.95 | 0.95 | 0.95 |\n| epithelial cell | 8 | 0.00 | 0.00 | 0.82 | 0.93 | 0.00 | 0.80 | 1.00 | 1.00 | 1.00 |\n| plasmacytoid dendritic cell | 5 | 0.00 | 0.00 | 0.60 | 0.62 | 0.00 | 0.31 | 1.00 | 1.00 | 0.91 |\n| monocyte | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 |\n| B cell | 3 | 0.00 | 0.00 | 0.67 | 0.50 | 0.00 | 0.86 | 1.00 | 1.00 | 1.00 |\n| classical monocyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.80 | 1.00 | 1.00 | 0.50 |\n| mast cell | 2 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 | 0.67 | 1.00 | 1.00 | 1.00 |\n| mature NK T cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 1.00 | 0.67 |\n| T cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 1.00 | 0.67 |\n| myeloid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 1.00 | 1.00 | 0.00 |\n| hematopoietic precursor cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 1.00 | 1.00 | 1.00 |"
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}
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celltypist.pkl
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version https://git-lfs.github.com/spec/v1
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checkpoint
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model_checkpoint_path: "OnClass"
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all_model_checkpoint_paths: "OnClass"
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harmony_knn_classifier.joblib
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version https://git-lfs.github.com/spec/v1
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obo_dag.joblib
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version https://git-lfs.github.com/spec/v1
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popv_output/predictions.csv
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preprocessing.json
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pynndescent_index.joblib
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version https://git-lfs.github.com/spec/v1
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scanvi/model.pt
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scvi/model.pt
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scvi_knn_classifier.joblib
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svm_classifier_cuml.joblib
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version https://git-lfs.github.com/spec/v1
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xgboost_classifier.model
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version https://git-lfs.github.com/spec/v1
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