Upload folder using huggingface_hub

.gitattributes

@@ -33,3 +33,5 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.zip filter=lfs diff=lfs merge=lfs -text
 *.zst filter=lfs diff=lfs merge=lfs -text
 *tfevents* filter=lfs diff=lfs merge=lfs -text
+OnClass.data-00000-of-00001 filter=lfs diff=lfs merge=lfs -text
+faiss_index.faiss filter=lfs diff=lfs merge=lfs -text

OnClass.data-00000-of-00001

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:52fefdf99b04ade3d5d538b12211d690be45c8a5c0e7084b229b4a768f3463a5
+size 27239224

OnClass.npz

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:d5a516400369444699f2ecb3396452fafc5baf26d3e26717fe40122bcc4d914a
+size 144112327

accuracies.json

@@ -0,0 +1,4 @@
+{
+    "query_accuracy": "| Cell Type | N cells |  celltypist |  knn on bbknn |  knn on harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| luminal epithelial cell of mammary gland | 1529 | 0.99 | 0.94 | 1.00 | 1.00 | 0.00 | 0.88 | 0.99 | 0.99 | 1.00 |\n| fibroblast of breast | 544 | 0.99 | 0.96 | 0.99 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| CD8-positive, alpha-beta T cell | 260 | 0.89 | 0.89 | 0.90 | 0.81 | 0.00 | 0.79 | 0.86 | 0.90 | 0.91 |\n| basal cell | 194 | 0.94 | 0.95 | 0.97 | 0.98 | 0.00 | 0.96 | 0.97 | 0.96 | 0.97 |\n| progenitor cell of mammary luminal epithelium | 174 | 0.99 | 0.22 | 1.00 | 1.00 | 0.00 | 0.98 | 0.98 | 0.98 | 0.99 |\n| endothelial cell | 148 | 0.97 | 0.96 | 0.98 | 0.99 | 0.00 | 0.95 | 0.97 | 0.97 | 0.98 |\n| macrophage | 70 | 0.95 | 0.96 | 0.98 | 0.98 | 0.00 | 0.96 | 0.97 | 0.97 | 0.97 |\n| CD4-positive, alpha-beta T cell | 70 | 0.66 | 0.66 | 0.63 | 0.20 | 0.00 | 0.54 | 0.59 | 0.76 | 0.71 |\n| vascular associated smooth muscle cell | 46 | 0.96 | 0.96 | 0.97 | 0.95 | 0.00 | 0.95 | 0.89 | 0.90 | 0.97 |\n| plasma cell | 32 | 1.00 | 0.92 | 1.00 | 0.97 | 0.00 | 0.83 | 0.98 | 1.00 | 1.00 |\n| T cell | 21 | 0.50 | 0.06 | 0.41 | 0.00 | 0.00 | 0.44 | 0.51 | 0.54 | 0.51 |\n| mast cell | 2 | 0.29 | 0.00 | 0.67 | 1.00 | 0.00 | 0.80 | 0.80 | 1.00 | 0.80 |\n| B cell | 2 | 0.00 | 1.00 | 1.00 | 1.00 | 0.00 | 0.33 | 0.67 | 0.67 | 1.00 |\n| mature NK T cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| basophil | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| natural killer cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 0.00 | 1.00 | 0.00 |\n| regulatory T cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |",
+    "ref_accuracy": "| Cell Type | N cells |  celltypist |  knn on bbknn |  knn on harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| luminal epithelial cell of mammary gland | 13903 | 0.99 | 0.94 | 1.00 | 1.00 | 0.00 | 0.89 | 0.99 | 0.99 | 0.99 |\n| fibroblast of breast | 4726 | 0.99 | 0.93 | 0.99 | 0.99 | 0.00 | 0.98 | 0.98 | 0.98 | 0.99 |\n| CD8-positive, alpha-beta T cell | 2393 | 0.90 | 0.90 | 0.94 | 0.87 | 0.00 | 0.84 | 0.92 | 0.94 | 0.96 |\n| basal cell | 1625 | 0.93 | 0.90 | 0.98 | 0.97 | 0.00 | 0.95 | 0.96 | 0.96 | 0.97 |\n| progenitor cell of mammary luminal epithelium | 1520 | 0.99 | 0.02 | 0.99 | 0.99 | 0.00 | 0.97 | 0.98 | 0.98 | 0.99 |\n| endothelial cell | 1386 | 0.96 | 0.96 | 0.98 | 0.99 | 0.00 | 0.94 | 0.98 | 0.97 | 0.98 |\n| macrophage | 615 | 0.96 | 0.96 | 0.98 | 0.98 | 0.00 | 0.97 | 0.98 | 0.98 | 0.98 |\n| CD4-positive, alpha-beta T cell | 611 | 0.66 | 0.62 | 0.77 | 0.45 | 0.00 | 0.65 | 0.80 | 0.86 | 0.88 |\n| vascular associated smooth muscle cell | 520 | 0.95 | 0.93 | 0.97 | 0.95 | 0.00 | 0.94 | 0.94 | 0.93 | 0.96 |\n| plasma cell | 261 | 0.98 | 0.85 | 0.98 | 0.95 | 0.00 | 0.81 | 0.99 | 0.97 | 0.99 |\n| T cell | 202 | 0.58 | 0.18 | 0.66 | 0.35 | 0.00 | 0.68 | 0.84 | 0.84 | 0.89 |\n| mast cell | 35 | 0.61 | 0.00 | 0.89 | 0.81 | 0.00 | 0.84 | 1.00 | 0.93 | 1.00 |\n| B cell | 13 | 0.00 | 0.82 | 0.92 | 0.64 | 0.00 | 0.30 | 1.00 | 1.00 | 1.00 |\n| mature NK T cell | 13 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.63 | 1.00 | 1.00 | 0.76 |\n| basophil | 12 | 0.00 | 0.11 | 0.38 | 0.14 | 0.00 | 0.01 | 1.00 | 1.00 | 0.96 |\n| natural killer cell | 5 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.31 | 1.00 | 1.00 | 0.33 |\n| regulatory T cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 1.00 | 0.67 |"
+}

celltypist.pkl

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:d1b8220c488fcbd91ec4e78b73ad274f16d065e631136c32bb4f64ca484fd7e4
+size 441645

checkpoint

@@ -0,0 +1,2 @@
+model_checkpoint_path: "OnClass"
+all_model_checkpoint_paths: "OnClass"

faiss_index.faiss

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:cdd432719efb3192162f3f0212b624263f955f2f4848b01f57deef8205a13bee
+size 5568445

harmony_knn_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:bc497b2c6d28b432e1845e6e5b0e19dc4afdd0096fbad0bccb46f8ed0ef55f0b
+size 9467739

obo_dag.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:88b6c19fc939f3c304978a10ef8b7cc6ba69d2d4a0a0613df8312b4ee3a26313
+size 321386

scanvi/model.pt

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:0448bfdc2fc3ccca27256603b756d841605540019b20f5696f62bb932a3e3784
+size 11571436

scvi/model.pt

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c5834cb8939f68a10dd1afe4a1a5fb5d75f1e8b8ba8c23047c8734fcf79f3481
+size 11026429

scvi_knn_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:120f1913f94f804f0cd280966aec22ba2fa71f5a72c53ee29708df1224ea4655
+size 6126699

svm_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:3876619c7ca4afdae0c788e3e002a49102686c17a4643daf1abdd494908fb1ae
+size 2728070

svm_classifier_cuml.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:54d4c9ac3a64ebe794eef0bca64aa4c5d6d6e17ee1d938336cd638ef478e8ee9
+size 291291

xgboost_classifier.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:f18061a4b474e6256bdfb12a146b40f9cc6bb663cea46bccffe6a836a079cfec
+size 4381468