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popV
/
tabula_sapiens_Germline

Joblib
popV
biology
genomics
single-cell
AnnData:0.12.2
scikit_learn:1.7.2
organism:Homo sapiens
Python:3.12.8
popV:0.6.0
tissue: Testis
tissue: Ovary
Model card Files
xet
 Community
canergen commited on
Commit
b08be86
·
verified ·
1 Parent(s): e81cccb

popV version: 0.5.3

Browse files
Files changed (23) hide show
  1. OnClass.data-00000-of-00001 +1 -1
  2. OnClass.index +0 -0
  3. OnClass.meta +0 -0
  4. OnClass.npz +1 -1
  5. README.md +0 -0
  6. accuracies.json +2 -2
  7. celltypist.pkl +1 -1
  8. faiss_index.faiss +0 -0
  9. faiss_index.index +1 -1
  10. harmony_knn_classifier.index +1 -1
  11. harmony_knn_classifier.joblib +0 -0
  12. metadata.json +0 -0
  13. minified_ref_adata.h5ad +0 -0
  14. popv_output/predictions.csv +0 -0
  15. preprocessing.json +0 -0
  16. ref_labels.csv +0 -0
  17. scanvi/model.pt +1 -1
  18. scvi/model.pt +1 -1
  19. scvi_knn_classifier.index +1 -1
  20. scvi_knn_classifier.joblib +0 -0
  21. svm_classifier.joblib +1 -1
  22. svm_classifier_cuml.joblib +0 -0
  23. xgboost_classifier.model +2 -2
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accuracies.json CHANGED
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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| spermatid | 402 | 0.98 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.98 | 0.99 |\n| spermatocyte | 306 | 0.97 | 0.98 | 0.98 | 0.98 | 0.00 | 0.98 | 0.98 | 0.96 | 0.98 |\n| male germ cell | 11 | 0.96 | 0.96 | 0.96 | 0.91 | 0.00 | 0.91 | 1.00 | 0.95 | 0.96 |\n| spermatogonium | 8 | 0.88 | 0.77 | 0.71 | 0.67 | 0.00 | 0.89 | 0.94 | 0.67 | 0.80 |",
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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| spermatid | 3607 | 0.98 | 0.99 | 0.99 | 0.99 | 0.00 | 0.99 | 0.99 | 0.98 | 0.99 |\n| spermatocyte | 2764 | 0.97 | 0.99 | 0.98 | 0.98 | 0.00 | 0.98 | 0.98 | 0.97 | 0.99 |\n| male germ cell | 105 | 0.96 | 0.98 | 0.96 | 0.97 | 0.00 | 0.93 | 1.00 | 1.00 | 0.99 |\n| spermatogonium | 56 | 0.80 | 0.95 | 0.80 | 0.86 | 0.00 | 0.87 | 0.94 | 0.93 | 0.94 |"
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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| spermatid | 405 | 0.98 | 0.99 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| spermatocyte | 303 | 0.97 | 0.98 | 0.97 | 0.97 | 0.00 | 0.97 | 0.99 | 0.96 | 0.98 |\n| male germ cell | 8 | 1.00 | 1.00 | 0.94 | 0.89 | 0.00 | 0.94 | 1.00 | 0.94 | 1.00 |\n| spermatogonium | 11 | 0.80 | 0.76 | 0.63 | 0.47 | 0.00 | 0.70 | 0.87 | 0.76 | 0.70 |",
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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| spermatid | 3604 | 0.98 | 0.99 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| spermatocyte | 2767 | 0.97 | 0.99 | 0.98 | 0.98 | 0.00 | 0.98 | 0.98 | 0.97 | 0.99 |\n| male germ cell | 108 | 0.96 | 0.99 | 0.95 | 0.95 | 0.00 | 0.99 | 1.00 | 0.98 | 0.99 |\n| spermatogonium | 53 | 0.88 | 0.94 | 0.82 | 0.79 | 0.00 | 0.93 | 0.95 | 0.92 | 0.95 |"
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