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 sha256:629a3e274fe2df0620f2fc2b3c45f8f96add86ad4a192284bc096f11a6734065
+size 27239224

OnClass.npz

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:20dfc7d5d61021c406158594bf1176a1eb6cc55d16d3242d4fdfa62e499418a2
+size 144112096

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| acinar cell of salivary gland | 1219 | 0.96 | 0.93 | 0.97 | 0.96 | 0.00 | 0.91 | 0.95 | 0.96 | 0.97 |\n| B cell | 515 | 1.00 | 0.99 | 0.98 | 0.99 | 0.00 | 1.00 | 1.00 | 1.00 | 1.00 |\n| fibroblast | 467 | 0.97 | 0.94 | 0.97 | 0.95 | 0.00 | 0.94 | 0.95 | 0.96 | 0.98 |\n| CD8-positive, alpha-beta T cell | 383 | 0.91 | 0.88 | 0.92 | 0.88 | 0.00 | 0.86 | 0.90 | 0.90 | 0.93 |\n| duct epithelial cell | 384 | 0.88 | 0.73 | 0.92 | 0.85 | 0.00 | 0.72 | 0.83 | 0.88 | 0.90 |\n| CD4-positive, alpha-beta T cell | 165 | 0.89 | 0.88 | 0.89 | 0.79 | 0.00 | 0.85 | 0.90 | 0.89 | 0.91 |\n| endothelial cell | 158 | 0.96 | 0.90 | 0.94 | 0.92 | 0.00 | 0.95 | 0.96 | 0.96 | 0.97 |\n| macrophage | 175 | 0.95 | 0.71 | 0.90 | 0.90 | 0.00 | 0.91 | 0.94 | 0.95 | 0.96 |\n| basal cell | 112 | 0.93 | 0.91 | 0.95 | 0.86 | 0.00 | 0.83 | 0.89 | 0.88 | 0.91 |\n| tissue-resident macrophage | 81 | 0.93 | 0.09 | 0.88 | 0.86 | 0.00 | 0.94 | 0.87 | 0.90 | 0.96 |\n| plasma cell | 45 | 0.89 | 0.98 | 0.98 | 0.97 | 0.00 | 0.96 | 0.97 | 0.97 | 0.98 |\n| endothelial cell of lymphatic vessel | 51 | 0.93 | 0.77 | 0.85 | 0.73 | 0.00 | 0.89 | 0.90 | 0.93 | 0.94 |\n| adventitial cell | 57 | 0.88 | 0.32 | 0.77 | 0.63 | 0.00 | 0.71 | 0.74 | 0.75 | 0.88 |\n| vascular associated smooth muscle cell | 44 | 0.99 | 0.99 | 0.97 | 0.99 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| neutrophil | 25 | 0.91 | 0.89 | 0.94 | 0.92 | 0.00 | 0.93 | 0.96 | 0.94 | 0.94 |\n| myoepithelial cell | 16 | 0.81 | 0.88 | 0.85 | 0.88 | 0.00 | 0.74 | 0.84 | 0.74 | 0.89 |\n| T cell | 19 | 0.54 | 0.10 | 0.57 | 0.30 | 0.00 | 0.38 | 0.52 | 0.45 | 0.53 |\n| ionocyte | 14 | 0.88 | 0.90 | 0.93 | 0.54 | 0.00 | 0.29 | 0.84 | 0.84 | 0.90 |\n| endothelial cell of artery | 10 | 0.75 | 0.67 | 0.84 | 0.53 | 0.00 | 0.67 | 0.86 | 0.87 | 0.86 |\n| monocyte | 10 | 0.44 | 0.33 | 0.47 | 0.25 | 0.00 | 0.56 | 0.69 | 0.72 | 0.65 |\n| natural killer cell | 9 | 0.42 | 0.33 | 0.59 | 0.18 | 0.00 | 0.36 | 0.59 | 0.60 | 0.67 |\n| mast cell | 5 | 0.00 | 0.67 | 0.73 | 0.29 | 0.00 | 0.62 | 0.67 | 0.44 | 0.60 |\n| classical monocyte | 8 | 0.00 | 0.00 | 0.00 | 0.35 | 0.00 | 0.00 | 0.36 | 0.46 | 0.00 |\n| intermediate monocyte | 6 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.17 | 0.44 | 0.36 | 0.00 |\n| mature NK T cell | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.33 | 0.57 | 0.00 |\n| leukocyte | 1 | 0.00 | 0.00 | 1.00 | 1.00 | 0.00 | 0.33 | 1.00 | 0.00 | 1.00 |\n| pericyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| salivary gland 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| non-classical monocyte | 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| acinar cell of salivary gland | 11018 | 0.96 | 0.93 | 0.97 | 0.97 | 0.00 | 0.92 | 0.95 | 0.96 | 0.98 |\n| B cell | 4433 | 0.99 | 0.99 | 0.98 | 0.99 | 0.00 | 0.99 | 0.99 | 0.99 | 1.00 |\n| fibroblast | 4000 | 0.97 | 0.93 | 0.98 | 0.97 | 0.00 | 0.95 | 0.96 | 0.97 | 0.99 |\n| CD8-positive, alpha-beta T cell | 3682 | 0.91 | 0.84 | 0.93 | 0.91 | 0.00 | 0.87 | 0.90 | 0.91 | 0.94 |\n| duct epithelial cell | 3505 | 0.87 | 0.75 | 0.94 | 0.90 | 0.00 | 0.78 | 0.85 | 0.88 | 0.92 |\n| CD4-positive, alpha-beta T cell | 1721 | 0.88 | 0.86 | 0.89 | 0.86 | 0.00 | 0.88 | 0.90 | 0.91 | 0.91 |\n| endothelial cell | 1471 | 0.94 | 0.89 | 0.94 | 0.96 | 0.00 | 0.96 | 0.97 | 0.98 | 0.98 |\n| macrophage | 1448 | 0.93 | 0.71 | 0.95 | 0.92 | 0.00 | 0.94 | 0.97 | 0.97 | 0.98 |\n| basal cell | 1070 | 0.92 | 0.91 | 0.96 | 0.91 | 0.00 | 0.89 | 0.93 | 0.94 | 0.96 |\n| tissue-resident macrophage | 573 | 0.88 | 0.01 | 0.92 | 0.92 | 0.00 | 0.93 | 0.86 | 0.89 | 0.95 |\n| plasma cell | 538 | 0.92 | 0.98 | 0.99 | 0.98 | 0.00 | 0.98 | 0.99 | 0.99 | 0.99 |\n| endothelial cell of lymphatic vessel | 495 | 0.91 | 0.66 | 0.88 | 0.92 | 0.00 | 0.94 | 0.95 | 0.96 | 0.97 |\n| adventitial cell | 403 | 0.83 | 0.20 | 0.84 | 0.77 | 0.00 | 0.78 | 0.79 | 0.82 | 0.95 |\n| vascular associated smooth muscle cell | 359 | 0.96 | 0.96 | 0.97 | 0.98 | 0.00 | 0.98 | 0.98 | 0.98 | 0.97 |\n| neutrophil | 218 | 0.93 | 0.92 | 0.97 | 0.93 | 0.00 | 0.91 | 0.98 | 0.98 | 0.97 |\n| myoepithelial cell | 200 | 0.90 | 0.91 | 0.94 | 0.92 | 0.00 | 0.85 | 0.92 | 0.92 | 0.94 |\n| T cell | 174 | 0.67 | 0.19 | 0.72 | 0.68 | 0.00 | 0.55 | 0.80 | 0.81 | 0.84 |\n| ionocyte | 128 | 0.88 | 0.88 | 0.92 | 0.68 | 0.00 | 0.44 | 0.90 | 0.86 | 0.92 |\n| endothelial cell of artery | 106 | 0.76 | 0.71 | 0.86 | 0.81 | 0.00 | 0.73 | 0.94 | 0.91 | 0.91 |\n| monocyte | 89 | 0.48 | 0.36 | 0.62 | 0.55 | 0.00 | 0.67 | 0.87 | 0.95 | 0.88 |\n| natural killer cell | 64 | 0.34 | 0.26 | 0.63 | 0.48 | 0.00 | 0.30 | 0.57 | 0.59 | 0.65 |\n| mast cell | 40 | 0.00 | 0.68 | 0.73 | 0.50 | 0.00 | 0.75 | 1.00 | 1.00 | 0.99 |\n| classical monocyte | 35 | 0.00 | 0.00 | 0.32 | 0.34 | 0.00 | 0.79 | 0.95 | 0.93 | 0.91 |\n| intermediate monocyte | 36 | 0.00 | 0.00 | 0.51 | 0.47 | 0.00 | 0.83 | 0.89 | 0.90 | 0.99 |\n| mature NK T cell | 20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.46 | 0.83 | 0.68 | 0.40 |\n| leukocyte | 5 | 0.00 | 0.00 | 1.00 | 0.73 | 0.00 | 0.27 | 0.83 | 0.91 | 1.00 |\n| pericyte | 3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 1.00 | 1.00 | 0.00 |\n| salivary gland cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.67 | 1.00 | 0.80 |\n| myeloid dendritic cell | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 0.33 | 1.00 | 0.00 |\n| non-classical monocyte | 1 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 1.00 | 1.00 | 1.00 |"
+}

celltypist.pkl

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:f9279ca83a2a944784b2ad586afcbb3d025eddf85d99ed4b3f11950e9604b91d
+size 649932

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 sha256:2d1b032b6c96a01405ecba7c7e6389a9ef9f06746727dc63aabfdafd408e4e79
+size 7167645

harmony_knn_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:ad829f3f7d6d45fda4d85d55b47e0b38fd18dcb4a8449293ee3f87938fce342a
+size 12186395

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:ec0dd98c8dc45923fcec948956ded1ac8639e96ee7ff50b80f7dacf376258cc2
+size 11751724

scvi/model.pt

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:40b79ac726db24e1a974e57757cc535da6e93ce341d9110193e6b458ff0ae9ef
+size 11160125

scvi_knn_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:ed0924a20fdfb2e99bab2dd0f073667198b69e9192e13aeda0df12494b08094e
+size 7885835

svm_classifier.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:a29618b5728f6b82433be4917e0e73dd91e86cd17836de7b2ee27d7826509c34
+size 4748243

svm_classifier_cuml.joblib

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:b97de3d9d9920d8c8ce86f007da145ae1cd32290a104f2c9fdd1fc50a1700c0e
+size 512827

xgboost_classifier.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:e58a07b22e733bcf9ad42a1170e03cc0e0b93e33496855c60fe93f117817f79c
+size 7558755