popV version: 0.6.0

.gitattributes

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 popv_output/predictions.csv filter=lfs diff=lfs merge=lfs -text
 minified_ref_adata.h5ad filter=lfs diff=lfs merge=lfs -text
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+ref_labels.csv filter=lfs diff=lfs merge=lfs -text
+scvi_knn_classifier.index filter=lfs diff=lfs merge=lfs -text

OnClass.data-00000-of-00001

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OnClass.npz

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README.md

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----
-library_name: popV
-license: cc-by-4.0
-tags:
-- biology
-- genomics
-- single-cell
-- anndata_version:0.11.3
-- python_version:3.11.11
-- popV
-- 'tissue: diverse'
----
-
-Popular Vote (popV) model for automated cell type annotation of single-cell RNA-seq data. We provide here pretrained models
-for plug-in use in your own analysis.
-Follow our [tutorial](https://github.com/YosefLab/popV/blob/main/tabula_sapiens_tutorial.ipynb) to learn how to use the model for cell type annotation.
-
-# Model description
-
-Tabula Sapiens is a benchmark, first-draft human cell atlas of over 1.1M cells from 28 organs of 24 normal human subjects. This work is the product of the Tabula Sapiens Consortium. Taking the organs from the same individual controls for genetic background, age, environment, and epigenetic effects, and allows detailed analysis and comparison of cell types that are shared between tissues.
-
-**Link to CELLxGENE**:
-Link to the [data](https://cellxgene.cziscience.com/e/c5d88abe-f23a-45fa-a534-788985e93dad.cxg/) in the CELLxGENE browser for interactive exploration of the data and download of the source data.
-
-**Training Code URL**:
-Not provided by uploader.
-
-# Metrics
-
-We provide here accuracies for each of the experts and the ensemble model. The validation set accuracies are
-computed on a 10% random subset of the data that was not used for training.
-
-| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |
-| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
-| B cell | 11273 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.94 | 0.99 | 0.99 | 0.99 |
-| CD4-positive, alpha-beta T cell | 9709 | 0.59 | 0.80 | 0.82 | 0.77 | 0.00 | 0.40 | 0.44 | 0.60 | 0.79 |
-| CD8-positive, alpha-beta T cell | 7592 | 0.71 | 0.79 | 0.81 | 0.75 | 0.00 | 0.73 | 0.56 | 0.67 | 0.81 |
-| neutrophil | 6979 | 0.94 | 0.98 | 0.97 | 0.98 | 0.00 | 0.92 | 0.95 | 0.95 | 0.98 |
-| macrophage | 6824 | 0.83 | 0.85 | 0.91 | 0.83 | 0.00 | 0.71 | 0.73 | 0.76 | 0.89 |
-| plasma cell | 2779 | 0.97 | 0.98 | 0.97 | 0.98 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |
-| monocyte | 2605 | 0.50 | 0.41 | 0.76 | 0.47 | 0.00 | 0.33 | 0.44 | 0.56 | 0.58 |
-| classical monocyte | 1806 | 0.64 | 0.62 | 0.74 | 0.48 | 0.00 | 0.56 | 0.55 | 0.68 | 0.71 |
-| erythrocyte | 1512 | 0.97 | 0.97 | 0.97 | 0.98 | 0.00 | 0.97 | 0.97 | 0.97 | 0.98 |
-| natural killer cell | 1401 | 0.70 | 0.74 | 0.75 | 0.70 | 0.00 | 0.67 | 0.65 | 0.72 | 0.75 |
-| naive thymus-derived CD4-positive, alpha-beta T cell | 1006 | 0.25 | 0.05 | 0.31 | 0.09 | 0.00 | 0.21 | 0.22 | 0.31 | 0.29 |
-| T cell | 604 | 0.42 | 0.33 | 0.54 | 0.17 | 0.00 | 0.25 | 0.34 | 0.45 | 0.52 |
-| mast cell | 590 | 0.81 | 0.84 | 0.92 | 0.81 | 0.00 | 0.89 | 0.89 | 0.91 | 0.92 |
-| intermediate monocyte | 551 | 0.29 | 0.14 | 0.54 | 0.18 | 0.00 | 0.24 | 0.31 | 0.46 | 0.49 |
-| mature NK T cell | 545 | 0.53 | 0.56 | 0.62 | 0.35 | 0.00 | 0.42 | 0.41 | 0.49 | 0.62 |
-| mononuclear phagocyte | 556 | 0.57 | 0.00 | 0.75 | 0.15 | 0.00 | 0.03 | 0.59 | 0.57 | 0.63 |
-| CD4-positive, alpha-beta thymocyte | 456 | 0.41 | 0.07 | 0.60 | 0.28 | 0.00 | 0.19 | 0.33 | 0.42 | 0.57 |
-| regulatory T cell | 296 | 0.27 | 0.05 | 0.36 | 0.12 | 0.00 | 0.23 | 0.28 | 0.38 | 0.49 |
-| hematopoietic precursor cell | 208 | 0.51 | 0.69 | 0.77 | 0.67 | 0.00 | 0.45 | 0.50 | 0.58 | 0.67 |
-| gamma-delta T cell | 193 | 0.66 | 0.40 | 0.77 | 0.26 | 0.00 | 0.38 | 0.57 | 0.50 | 0.79 |
-| basophil | 175 | 0.53 | 0.12 | 0.80 | 0.31 | 0.00 | 0.73 | 0.72 | 0.79 | 0.81 |
-| tissue-resident macrophage | 128 | 0.68 | 0.00 | 0.83 | 0.21 | 0.00 | 0.24 | 0.67 | 0.52 | 0.76 |
-| non-classical monocyte | 114 | 0.28 | 0.34 | 0.47 | 0.02 | 0.00 | 0.17 | 0.22 | 0.36 | 0.53 |
-| activated CD8-positive, alpha-beta T cell | 119 | 0.34 | 0.00 | 0.38 | 0.04 | 0.00 | 0.09 | 0.25 | 0.38 | 0.39 |
-| naive thymus-derived CD8-positive, alpha-beta T cell | 112 | 0.13 | 0.00 | 0.35 | 0.12 | 0.00 | 0.20 | 0.13 | 0.16 | 0.27 |
-| myeloid leukocyte | 86 | 0.29 | 0.00 | 0.67 | 0.13 | 0.00 | 0.05 | 0.20 | 0.23 | 0.58 |
-| erythroid progenitor cell | 107 | 0.64 | 0.65 | 0.67 | 0.60 | 0.00 | 0.61 | 0.65 | 0.67 | 0.72 |
-| innate lymphoid cell | 83 | 0.17 | 0.18 | 0.31 | 0.25 | 0.00 | 0.26 | 0.17 | 0.23 | 0.33 |
-| hematopoietic stem cell | 72 | 0.74 | 0.72 | 0.77 | 0.71 | 0.00 | 0.70 | 0.75 | 0.80 | 0.80 |
-| granulocyte | 70 | 0.19 | 0.03 | 0.61 | 0.37 | 0.00 | 0.11 | 0.27 | 0.26 | 0.43 |
-| CD8-positive, alpha-beta thymocyte | 66 | 0.47 | 0.03 | 0.48 | 0.31 | 0.00 | 0.36 | 0.24 | 0.31 | 0.62 |
-| activated CD4-positive, alpha-beta T cell | 60 | 0.07 | 0.00 | 0.24 | 0.03 | 0.00 | 0.08 | 0.12 | 0.14 | 0.28 |
-| myeloid dendritic cell | 44 | 0.14 | 0.14 | 0.33 | 0.32 | 0.00 | 0.13 | 0.12 | 0.14 | 0.21 |
-| platelet | 52 | 0.60 | 0.92 | 0.97 | 0.94 | 0.00 | 0.57 | 0.82 | 0.76 | 0.85 |
-| common myeloid progenitor | 39 | 0.00 | 0.54 | 0.67 | 0.32 | 0.00 | 0.51 | 0.61 | 0.72 | 0.74 |
-| thymocyte | 43 | 0.00 | 0.00 | 0.46 | 0.32 | 0.00 | 0.28 | 0.21 | 0.46 | 0.72 |
-| microglial cell | 29 | 0.09 | 0.00 | 0.41 | 0.06 | 0.00 | 0.09 | 0.13 | 0.12 | 0.24 |
-| colon macrophage | 41 | 0.30 | 0.00 | 0.76 | 0.00 | 0.00 | 0.04 | 0.25 | 0.43 | 0.61 |
-| leukocyte | 15 | 0.12 | 0.00 | 0.05 | 0.11 | 0.00 | 0.02 | 0.05 | 0.16 | 0.20 |
-| plasmacytoid dendritic cell | 7 | 0.00 | 0.25 | 0.55 | 0.15 | 0.00 | 0.07 | 0.40 | 0.21 | 0.44 |
-| hematopoietic cell | 8 | 0.00 | 0.22 | 0.77 | 0.93 | 0.00 | 0.03 | 1.00 | 0.50 | 1.00 |
-| myeloid cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 0.12 | 0.00 |
-| Langerhans cell | 9 | 0.00 | 0.33 | 0.75 | 0.15 | 0.00 | 0.02 | 0.40 | 0.29 | 0.89 |
-| T follicular helper cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
-| erythroid lineage cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
-
-The train accuracies are computed on the training data.
-
-| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |
-| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
-| B cell | 103201 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.94 | 0.99 | 0.99 | 0.99 |
-| CD4-positive, alpha-beta T cell | 87379 | 0.60 | 0.79 | 0.87 | 0.82 | 0.00 | 0.48 | 0.44 | 0.60 | 0.82 |
-| CD8-positive, alpha-beta T cell | 68634 | 0.71 | 0.79 | 0.87 | 0.82 | 0.00 | 0.74 | 0.57 | 0.67 | 0.82 |
-| neutrophil | 62532 | 0.95 | 0.98 | 0.98 | 0.98 | 0.00 | 0.92 | 0.95 | 0.95 | 0.98 |
-| macrophage | 62168 | 0.82 | 0.84 | 0.94 | 0.87 | 0.00 | 0.77 | 0.73 | 0.76 | 0.92 |
-| plasma cell | 24558 | 0.97 | 0.98 | 0.98 | 0.98 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |
-| monocyte | 23143 | 0.50 | 0.32 | 0.84 | 0.68 | 0.00 | 0.47 | 0.47 | 0.57 | 0.67 |
-| classical monocyte | 16393 | 0.65 | 0.59 | 0.84 | 0.70 | 0.00 | 0.65 | 0.57 | 0.68 | 0.77 |
-| erythrocyte | 13096 | 0.97 | 0.97 | 0.98 | 0.99 | 0.00 | 0.97 | 0.96 | 0.97 | 0.98 |
-| natural killer cell | 12826 | 0.72 | 0.74 | 0.85 | 0.81 | 0.00 | 0.70 | 0.68 | 0.74 | 0.77 |
-| naive thymus-derived CD4-positive, alpha-beta T cell | 8821 | 0.26 | 0.05 | 0.46 | 0.23 | 0.00 | 0.26 | 0.24 | 0.32 | 0.38 |
-| T cell | 5682 | 0.44 | 0.29 | 0.69 | 0.36 | 0.00 | 0.38 | 0.35 | 0.45 | 0.61 |
-| mast cell | 5625 | 0.83 | 0.86 | 0.95 | 0.93 | 0.00 | 0.94 | 0.89 | 0.92 | 0.95 |
-| intermediate monocyte | 4926 | 0.30 | 0.10 | 0.69 | 0.45 | 0.00 | 0.36 | 0.34 | 0.46 | 0.55 |
-| mature NK T cell | 4845 | 0.53 | 0.50 | 0.74 | 0.57 | 0.00 | 0.50 | 0.41 | 0.51 | 0.65 |
-| mononuclear phagocyte | 4780 | 0.57 | 0.00 | 0.91 | 0.42 | 0.00 | 0.90 | 0.58 | 0.56 | 0.90 |
-| CD4-positive, alpha-beta thymocyte | 4229 | 0.42 | 0.01 | 0.72 | 0.49 | 0.00 | 0.63 | 0.36 | 0.43 | 0.69 |
-| regulatory T cell | 2353 | 0.26 | 0.03 | 0.55 | 0.28 | 0.00 | 0.24 | 0.26 | 0.38 | 0.48 |
-| hematopoietic precursor cell | 1932 | 0.51 | 0.63 | 0.85 | 0.78 | 0.00 | 0.48 | 0.56 | 0.62 | 0.75 |
-| gamma-delta T cell | 1783 | 0.66 | 0.28 | 0.86 | 0.39 | 0.00 | 0.52 | 0.58 | 0.50 | 0.82 |
-| basophil | 1494 | 0.47 | 0.02 | 0.88 | 0.76 | 0.00 | 0.84 | 0.69 | 0.81 | 0.89 |
-| tissue-resident macrophage | 1219 | 0.65 | 0.00 | 0.89 | 0.60 | 0.00 | 0.43 | 0.67 | 0.53 | 0.77 |
-| non-classical monocyte | 1170 | 0.30 | 0.32 | 0.59 | 0.31 | 0.00 | 0.22 | 0.28 | 0.42 | 0.57 |
-| activated CD8-positive, alpha-beta T cell | 1023 | 0.37 | 0.00 | 0.48 | 0.17 | 0.00 | 0.38 | 0.28 | 0.40 | 0.66 |
-| naive thymus-derived CD8-positive, alpha-beta T cell | 944 | 0.14 | 0.00 | 0.62 | 0.35 | 0.00 | 0.25 | 0.15 | 0.17 | 0.32 |
-| myeloid leukocyte | 908 | 0.25 | 0.00 | 0.74 | 0.31 | 0.00 | 0.51 | 0.27 | 0.27 | 0.73 |
-| erythroid progenitor cell | 864 | 0.60 | 0.57 | 0.82 | 0.80 | 0.00 | 0.69 | 0.76 | 0.74 | 0.79 |
-| innate lymphoid cell | 888 | 0.19 | 0.12 | 0.57 | 0.45 | 0.00 | 0.51 | 0.22 | 0.27 | 0.46 |
-| hematopoietic stem cell | 786 | 0.72 | 0.69 | 0.86 | 0.81 | 0.00 | 0.76 | 0.81 | 0.84 | 0.86 |
-| granulocyte | 699 | 0.22 | 0.00 | 0.74 | 0.67 | 0.00 | 0.17 | 0.29 | 0.30 | 0.56 |
-| CD8-positive, alpha-beta thymocyte | 665 | 0.40 | 0.01 | 0.57 | 0.42 | 0.00 | 0.47 | 0.30 | 0.41 | 0.74 |
-| activated CD4-positive, alpha-beta T cell | 512 | 0.06 | 0.00 | 0.47 | 0.15 | 0.00 | 0.15 | 0.14 | 0.15 | 0.33 |
-| myeloid dendritic cell | 524 | 0.15 | 0.08 | 0.57 | 0.37 | 0.00 | 0.25 | 0.18 | 0.22 | 0.32 |
-| platelet | 442 | 0.65 | 0.87 | 0.96 | 0.96 | 0.00 | 0.56 | 0.88 | 0.79 | 0.90 |
-| common myeloid progenitor | 417 | 0.00 | 0.41 | 0.84 | 0.76 | 0.00 | 0.73 | 0.78 | 0.86 | 0.90 |
-| thymocyte | 412 | 0.00 | 0.00 | 0.53 | 0.47 | 0.00 | 0.35 | 0.26 | 0.61 | 0.91 |
-| microglial cell | 358 | 0.11 | 0.01 | 0.61 | 0.18 | 0.00 | 0.46 | 0.20 | 0.20 | 0.37 |
-| colon macrophage | 286 | 0.22 | 0.00 | 0.82 | 0.40 | 0.00 | 0.42 | 0.25 | 0.43 | 0.86 |
-| leukocyte | 171 | 0.08 | 0.00 | 0.48 | 0.17 | 0.00 | 0.26 | 0.14 | 0.19 | 0.40 |
-| plasmacytoid dendritic cell | 91 | 0.00 | 0.37 | 0.80 | 0.64 | 0.00 | 0.15 | 0.52 | 0.50 | 0.69 |
-| hematopoietic cell | 90 | 0.00 | 0.00 | 0.98 | 0.82 | 0.00 | 0.04 | 0.98 | 0.62 | 0.96 |
-| myeloid cell | 79 | 0.00 | 0.00 | 0.40 | 0.12 | 0.00 | 0.46 | 0.42 | 0.32 | 0.91 |
-| Langerhans cell | 67 | 0.00 | 0.05 | 0.75 | 0.46 | 0.00 | 0.02 | 0.36 | 0.29 | 0.74 |
-| T follicular helper cell | 6 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.92 | 0.60 | 0.91 |
-| erythroid lineage cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.67 | 1.00 | 0.00 |
-
-</details>
-
-
-# References
-
-Tabula Sapiens reveals transcription factor expression, senescence effects, and sex-specific features in cell types from 28 human organs and tissues, The Tabula Sapiens Consortium; bioRxiv, doi: https://doi.org/10.1101/2024.12.03.626516

accuracies.json

@@ -1,4 +1,4 @@
 {
-    "query_accuracy": "| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| B cell | 11273 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.94 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 9709 | 0.59 | 0.80 | 0.82 | 0.77 | 0.00 | 0.40 | 0.44 | 0.60 | 0.79 |\n| CD8-positive, alpha-beta T cell | 7592 | 0.71 | 0.79 | 0.81 | 0.75 | 0.00 | 0.73 | 0.56 | 0.67 | 0.81 |\n| neutrophil | 6979 | 0.94 | 0.98 | 0.97 | 0.98 | 0.00 | 0.92 | 0.95 | 0.95 | 0.98 |\n| macrophage | 6824 | 0.83 | 0.85 | 0.91 | 0.83 | 0.00 | 0.71 | 0.73 | 0.76 | 0.89 |\n| plasma cell | 2779 | 0.97 | 0.98 | 0.97 | 0.98 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| monocyte | 2605 | 0.50 | 0.41 | 0.76 | 0.47 | 0.00 | 0.33 | 0.44 | 0.56 | 0.58 |\n| classical monocyte | 1806 | 0.64 | 0.62 | 0.74 | 0.48 | 0.00 | 0.56 | 0.55 | 0.68 | 0.71 |\n| erythrocyte | 1512 | 0.97 | 0.97 | 0.97 | 0.98 | 0.00 | 0.97 | 0.97 | 0.97 | 0.98 |\n| natural killer cell | 1401 | 0.70 | 0.74 | 0.75 | 0.70 | 0.00 | 0.67 | 0.65 | 0.72 | 0.75 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 1006 | 0.25 | 0.05 | 0.31 | 0.09 | 0.00 | 0.21 | 0.22 | 0.31 | 0.29 |\n| T cell | 604 | 0.42 | 0.33 | 0.54 | 0.17 | 0.00 | 0.25 | 0.34 | 0.45 | 0.52 |\n| mast cell | 590 | 0.81 | 0.84 | 0.92 | 0.81 | 0.00 | 0.89 | 0.89 | 0.91 | 0.92 |\n| intermediate monocyte | 551 | 0.29 | 0.14 | 0.54 | 0.18 | 0.00 | 0.24 | 0.31 | 0.46 | 0.49 |\n| mature NK T cell | 545 | 0.53 | 0.56 | 0.62 | 0.35 | 0.00 | 0.42 | 0.41 | 0.49 | 0.62 |\n| mononuclear phagocyte | 556 | 0.57 | 0.00 | 0.75 | 0.15 | 0.00 | 0.03 | 0.59 | 0.57 | 0.63 |\n| CD4-positive, alpha-beta thymocyte | 456 | 0.41 | 0.07 | 0.60 | 0.28 | 0.00 | 0.19 | 0.33 | 0.42 | 0.57 |\n| regulatory T cell | 296 | 0.27 | 0.05 | 0.36 | 0.12 | 0.00 | 0.23 | 0.28 | 0.38 | 0.49 |\n| hematopoietic precursor cell | 208 | 0.51 | 0.69 | 0.77 | 0.67 | 0.00 | 0.45 | 0.50 | 0.58 | 0.67 |\n| gamma-delta T cell | 193 | 0.66 | 0.40 | 0.77 | 0.26 | 0.00 | 0.38 | 0.57 | 0.50 | 0.79 |\n| basophil | 175 | 0.53 | 0.12 | 0.80 | 0.31 | 0.00 | 0.73 | 0.72 | 0.79 | 0.81 |\n| tissue-resident macrophage | 128 | 0.68 | 0.00 | 0.83 | 0.21 | 0.00 | 0.24 | 0.67 | 0.52 | 0.76 |\n| non-classical monocyte | 114 | 0.28 | 0.34 | 0.47 | 0.02 | 0.00 | 0.17 | 0.22 | 0.36 | 0.53 |\n| activated CD8-positive, alpha-beta T cell | 119 | 0.34 | 0.00 | 0.38 | 0.04 | 0.00 | 0.09 | 0.25 | 0.38 | 0.39 |\n| naive thymus-derived CD8-positive, alpha-beta T cell | 112 | 0.13 | 0.00 | 0.35 | 0.12 | 0.00 | 0.20 | 0.13 | 0.16 | 0.27 |\n| myeloid leukocyte | 86 | 0.29 | 0.00 | 0.67 | 0.13 | 0.00 | 0.05 | 0.20 | 0.23 | 0.58 |\n| erythroid progenitor cell | 107 | 0.64 | 0.65 | 0.67 | 0.60 | 0.00 | 0.61 | 0.65 | 0.67 | 0.72 |\n| innate lymphoid cell | 83 | 0.17 | 0.18 | 0.31 | 0.25 | 0.00 | 0.26 | 0.17 | 0.23 | 0.33 |\n| hematopoietic stem cell | 72 | 0.74 | 0.72 | 0.77 | 0.71 | 0.00 | 0.70 | 0.75 | 0.80 | 0.80 |\n| granulocyte | 70 | 0.19 | 0.03 | 0.61 | 0.37 | 0.00 | 0.11 | 0.27 | 0.26 | 0.43 |\n| CD8-positive, alpha-beta thymocyte | 66 | 0.47 | 0.03 | 0.48 | 0.31 | 0.00 | 0.36 | 0.24 | 0.31 | 0.62 |\n| activated CD4-positive, alpha-beta T cell | 60 | 0.07 | 0.00 | 0.24 | 0.03 | 0.00 | 0.08 | 0.12 | 0.14 | 0.28 |\n| myeloid dendritic cell | 44 | 0.14 | 0.14 | 0.33 | 0.32 | 0.00 | 0.13 | 0.12 | 0.14 | 0.21 |\n| platelet | 52 | 0.60 | 0.92 | 0.97 | 0.94 | 0.00 | 0.57 | 0.82 | 0.76 | 0.85 |\n| common myeloid progenitor | 39 | 0.00 | 0.54 | 0.67 | 0.32 | 0.00 | 0.51 | 0.61 | 0.72 | 0.74 |\n| thymocyte | 43 | 0.00 | 0.00 | 0.46 | 0.32 | 0.00 | 0.28 | 0.21 | 0.46 | 0.72 |\n| microglial cell | 29 | 0.09 | 0.00 | 0.41 | 0.06 | 0.00 | 0.09 | 0.13 | 0.12 | 0.24 |\n| colon macrophage | 41 | 0.30 | 0.00 | 0.76 | 0.00 | 0.00 | 0.04 | 0.25 | 0.43 | 0.61 |\n| leukocyte | 15 | 0.12 | 0.00 | 0.05 | 0.11 | 0.00 | 0.02 | 0.05 | 0.16 | 0.20 |\n| plasmacytoid dendritic cell | 7 | 0.00 | 0.25 | 0.55 | 0.15 | 0.00 | 0.07 | 0.40 | 0.21 | 0.44 |\n| hematopoietic cell | 8 | 0.00 | 0.22 | 0.77 | 0.93 | 0.00 | 0.03 | 1.00 | 0.50 | 1.00 |\n| myeloid cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 0.12 | 0.00 |\n| Langerhans cell | 9 | 0.00 | 0.33 | 0.75 | 0.15 | 0.00 | 0.02 | 0.40 | 0.29 | 0.89 |\n| T follicular helper cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| erythroid lineage 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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| B cell | 103201 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.94 | 0.99 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 87379 | 0.60 | 0.79 | 0.87 | 0.82 | 0.00 | 0.48 | 0.44 | 0.60 | 0.82 |\n| CD8-positive, alpha-beta T cell | 68634 | 0.71 | 0.79 | 0.87 | 0.82 | 0.00 | 0.74 | 0.57 | 0.67 | 0.82 |\n| neutrophil | 62532 | 0.95 | 0.98 | 0.98 | 0.98 | 0.00 | 0.92 | 0.95 | 0.95 | 0.98 |\n| macrophage | 62168 | 0.82 | 0.84 | 0.94 | 0.87 | 0.00 | 0.77 | 0.73 | 0.76 | 0.92 |\n| plasma cell | 24558 | 0.97 | 0.98 | 0.98 | 0.98 | 0.00 | 0.98 | 0.99 | 0.98 | 0.99 |\n| monocyte | 23143 | 0.50 | 0.32 | 0.84 | 0.68 | 0.00 | 0.47 | 0.47 | 0.57 | 0.67 |\n| classical monocyte | 16393 | 0.65 | 0.59 | 0.84 | 0.70 | 0.00 | 0.65 | 0.57 | 0.68 | 0.77 |\n| erythrocyte | 13096 | 0.97 | 0.97 | 0.98 | 0.99 | 0.00 | 0.97 | 0.96 | 0.97 | 0.98 |\n| natural killer cell | 12826 | 0.72 | 0.74 | 0.85 | 0.81 | 0.00 | 0.70 | 0.68 | 0.74 | 0.77 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 8821 | 0.26 | 0.05 | 0.46 | 0.23 | 0.00 | 0.26 | 0.24 | 0.32 | 0.38 |\n| T cell | 5682 | 0.44 | 0.29 | 0.69 | 0.36 | 0.00 | 0.38 | 0.35 | 0.45 | 0.61 |\n| mast cell | 5625 | 0.83 | 0.86 | 0.95 | 0.93 | 0.00 | 0.94 | 0.89 | 0.92 | 0.95 |\n| intermediate monocyte | 4926 | 0.30 | 0.10 | 0.69 | 0.45 | 0.00 | 0.36 | 0.34 | 0.46 | 0.55 |\n| mature NK T cell | 4845 | 0.53 | 0.50 | 0.74 | 0.57 | 0.00 | 0.50 | 0.41 | 0.51 | 0.65 |\n| mononuclear phagocyte | 4780 | 0.57 | 0.00 | 0.91 | 0.42 | 0.00 | 0.90 | 0.58 | 0.56 | 0.90 |\n| CD4-positive, alpha-beta thymocyte | 4229 | 0.42 | 0.01 | 0.72 | 0.49 | 0.00 | 0.63 | 0.36 | 0.43 | 0.69 |\n| regulatory T cell | 2353 | 0.26 | 0.03 | 0.55 | 0.28 | 0.00 | 0.24 | 0.26 | 0.38 | 0.48 |\n| hematopoietic precursor cell | 1932 | 0.51 | 0.63 | 0.85 | 0.78 | 0.00 | 0.48 | 0.56 | 0.62 | 0.75 |\n| gamma-delta T cell | 1783 | 0.66 | 0.28 | 0.86 | 0.39 | 0.00 | 0.52 | 0.58 | 0.50 | 0.82 |\n| basophil | 1494 | 0.47 | 0.02 | 0.88 | 0.76 | 0.00 | 0.84 | 0.69 | 0.81 | 0.89 |\n| tissue-resident macrophage | 1219 | 0.65 | 0.00 | 0.89 | 0.60 | 0.00 | 0.43 | 0.67 | 0.53 | 0.77 |\n| non-classical monocyte | 1170 | 0.30 | 0.32 | 0.59 | 0.31 | 0.00 | 0.22 | 0.28 | 0.42 | 0.57 |\n| activated CD8-positive, alpha-beta T cell | 1023 | 0.37 | 0.00 | 0.48 | 0.17 | 0.00 | 0.38 | 0.28 | 0.40 | 0.66 |\n| naive thymus-derived CD8-positive, alpha-beta T cell | 944 | 0.14 | 0.00 | 0.62 | 0.35 | 0.00 | 0.25 | 0.15 | 0.17 | 0.32 |\n| myeloid leukocyte | 908 | 0.25 | 0.00 | 0.74 | 0.31 | 0.00 | 0.51 | 0.27 | 0.27 | 0.73 |\n| erythroid progenitor cell | 864 | 0.60 | 0.57 | 0.82 | 0.80 | 0.00 | 0.69 | 0.76 | 0.74 | 0.79 |\n| innate lymphoid cell | 888 | 0.19 | 0.12 | 0.57 | 0.45 | 0.00 | 0.51 | 0.22 | 0.27 | 0.46 |\n| hematopoietic stem cell | 786 | 0.72 | 0.69 | 0.86 | 0.81 | 0.00 | 0.76 | 0.81 | 0.84 | 0.86 |\n| granulocyte | 699 | 0.22 | 0.00 | 0.74 | 0.67 | 0.00 | 0.17 | 0.29 | 0.30 | 0.56 |\n| CD8-positive, alpha-beta thymocyte | 665 | 0.40 | 0.01 | 0.57 | 0.42 | 0.00 | 0.47 | 0.30 | 0.41 | 0.74 |\n| activated CD4-positive, alpha-beta T cell | 512 | 0.06 | 0.00 | 0.47 | 0.15 | 0.00 | 0.15 | 0.14 | 0.15 | 0.33 |\n| myeloid dendritic cell | 524 | 0.15 | 0.08 | 0.57 | 0.37 | 0.00 | 0.25 | 0.18 | 0.22 | 0.32 |\n| platelet | 442 | 0.65 | 0.87 | 0.96 | 0.96 | 0.00 | 0.56 | 0.88 | 0.79 | 0.90 |\n| common myeloid progenitor | 417 | 0.00 | 0.41 | 0.84 | 0.76 | 0.00 | 0.73 | 0.78 | 0.86 | 0.90 |\n| thymocyte | 412 | 0.00 | 0.00 | 0.53 | 0.47 | 0.00 | 0.35 | 0.26 | 0.61 | 0.91 |\n| microglial cell | 358 | 0.11 | 0.01 | 0.61 | 0.18 | 0.00 | 0.46 | 0.20 | 0.20 | 0.37 |\n| colon macrophage | 286 | 0.22 | 0.00 | 0.82 | 0.40 | 0.00 | 0.42 | 0.25 | 0.43 | 0.86 |\n| leukocyte | 171 | 0.08 | 0.00 | 0.48 | 0.17 | 0.00 | 0.26 | 0.14 | 0.19 | 0.40 |\n| plasmacytoid dendritic cell | 91 | 0.00 | 0.37 | 0.80 | 0.64 | 0.00 | 0.15 | 0.52 | 0.50 | 0.69 |\n| hematopoietic cell | 90 | 0.00 | 0.00 | 0.98 | 0.82 | 0.00 | 0.04 | 0.98 | 0.62 | 0.96 |\n| myeloid cell | 79 | 0.00 | 0.00 | 0.40 | 0.12 | 0.00 | 0.46 | 0.42 | 0.32 | 0.91 |\n| Langerhans cell | 67 | 0.00 | 0.05 | 0.75 | 0.46 | 0.00 | 0.02 | 0.36 | 0.29 | 0.74 |\n| T follicular helper cell | 6 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.92 | 0.60 | 0.91 |\n| erythroid lineage cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.67 | 1.00 | 0.00 |"
+    "query_accuracy": "| Cell Type | N cells |  celltypist |  knn bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| B cell | 15921 | 0.99 | 0.99 | 0.97 | 0.99 | 0.00 | 0.98 | 0.99 | 0.99 | 1.00 |\n| CD4-positive, alpha-beta T cell | 10228 | 0.40 | 0.81 | 0.80 | 0.79 | 0.00 | 0.42 | 0.34 | 0.51 | 0.75 |\n| CD8-positive, alpha-beta T cell | 8293 | 0.75 | 0.81 | 0.82 | 0.78 | 0.00 | 0.71 | 0.58 | 0.68 | 0.82 |\n| neutrophil | 17440 | 0.99 | 1.00 | 0.96 | 1.00 | 0.00 | 0.94 | 0.97 | 0.97 | 0.99 |\n| macrophage | 12654 | 0.93 | 0.93 | 0.92 | 0.90 | 0.00 | 0.87 | 0.87 | 0.88 | 0.95 |\n| plasma cell | 6650 | 0.98 | 0.99 | 0.87 | 0.98 | 0.00 | 0.98 | 0.98 | 0.98 | 0.99 |\n| monocyte | 7170 | 0.03 | 0.24 | 0.79 | 0.29 | 0.00 | 0.18 | 0.28 | 0.27 | 0.18 |\n| classical monocyte | 3217 | 0.39 | 0.47 | 0.62 | 0.39 | 0.00 | 0.37 | 0.31 | 0.36 | 0.42 |\n| erythrocyte | 1496 | 0.98 | 0.99 | 0.85 | 0.99 | 0.00 | 0.97 | 0.96 | 0.98 | 0.98 |\n| natural killer cell | 1805 | 0.65 | 0.74 | 0.77 | 0.71 | 0.00 | 0.68 | 0.64 | 0.70 | 0.73 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 1264 | 0.15 | 0.06 | 0.35 | 0.02 | 0.00 | 0.25 | 0.19 | 0.29 | 0.23 |\n| T cell | 476 | 0.41 | 0.38 | 0.66 | 0.44 | 0.00 | 0.33 | 0.27 | 0.45 | 0.51 |\n| mast cell | 383 | 0.48 | 0.55 | 0.82 | 0.54 | 0.00 | 0.79 | 0.76 | 0.66 | 0.71 |\n| intermediate monocyte | 379 | 0.07 | 0.15 | 0.36 | 0.09 | 0.00 | 0.05 | 0.06 | 0.08 | 0.09 |\n| mature NK T cell | 1096 | 0.64 | 0.65 | 0.60 | 0.54 | 0.00 | 0.57 | 0.49 | 0.56 | 0.67 |\n| mononuclear phagocyte | 62 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.05 | 0.00 |\n| CD4-positive, alpha-beta thymocyte | 5 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 |\n| regulatory T cell | 536 | 0.34 | 0.00 | 0.22 | 0.03 | 0.00 | 0.33 | 0.35 | 0.55 | 0.49 |\n| hematopoietic precursor cell | 125 | 0.23 | 0.53 | 0.55 | 0.46 | 0.00 | 0.22 | 0.24 | 0.27 | 0.40 |\n| gamma-delta T cell | 517 | 0.83 | 0.27 | 0.72 | 0.26 | 0.00 | 0.32 | 0.75 | 0.73 | 0.81 |\n| basophil | 584 | 0.15 | 0.03 | 0.91 | 0.09 | 0.00 | 0.81 | 0.75 | 0.75 | 0.71 |\n| tissue-resident macrophage | 18 | 0.73 | 0.00 | 0.05 | 0.04 | 0.00 | 0.03 | 0.26 | 0.16 | 0.27 |\n| non-classical monocyte | 214 | 0.31 | 0.45 | 0.39 | 0.33 | 0.00 | 0.15 | 0.21 | 0.27 | 0.44 |\n| activated CD8-positive, alpha-beta T cell | 9 | 0.11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.03 | 0.13 |\n| naive thymus-derived CD8-positive, alpha-beta T cell | 86 | 0.13 | 0.00 | 0.18 | 0.02 | 0.00 | 0.16 | 0.07 | 0.08 | 0.24 |\n| myeloid leukocyte | 237 | 0.49 | 0.02 | 0.40 | 0.02 | 0.00 | 0.08 | 0.28 | 0.29 | 0.40 |\n| erythroid progenitor cell | 81 | 0.61 | 0.74 | 0.70 | 0.67 | 0.00 | 0.48 | 0.71 | 0.72 | 0.71 |\n| innate lymphoid cell | 209 | 0.36 | 0.15 | 0.26 | 0.08 | 0.00 | 0.19 | 0.29 | 0.41 | 0.43 |\n| hematopoietic stem cell | 51 | 0.62 | 0.59 | 0.64 | 0.59 | 0.00 | 0.47 | 0.53 | 0.63 | 0.65 |\n| granulocyte | 20 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.03 | 0.00 |\n| CD8-positive, alpha-beta thymocyte | 4 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.05 | 0.00 |\n| activated CD4-positive, alpha-beta T cell | 4 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 |\n| myeloid dendritic cell | 70 | 0.16 | 0.14 | 0.34 | 0.05 | 0.00 | 0.11 | 0.14 | 0.13 | 0.18 |\n| platelet | 131 | 0.76 | 0.92 | 0.84 | 0.96 | 0.00 | 0.68 | 0.71 | 0.76 | 0.85 |\n| common myeloid progenitor | 5 | 0.00 | 0.12 | 0.07 | 0.10 | 0.00 | 0.04 | 0.00 | 0.15 | 0.07 |\n| thymocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| microglial cell | 89 | 0.50 | 0.00 | 0.04 | 0.00 | 0.00 | 0.33 | 0.40 | 0.36 | 0.42 |\n| colon macrophage | 118 | 0.21 | 0.00 | 0.73 | 0.00 | 0.00 | 0.00 | 0.29 | 0.40 | 0.65 |\n| leukocyte | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| hematopoietic cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| plasmacytoid dendritic cell | 31 | 0.92 | 0.44 | 0.36 | 0.17 | 0.00 | 0.12 | 0.58 | 0.57 | 0.81 |\n| myeloid cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| Langerhans cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| T follicular helper cell | 0 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |\n| erythroid lineage 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 bbknn |  knn harmony |  knn on scvi |  onclass |  scanvi |  svm |  xgboost | Consensus Prediction |\n| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |\n| B cell | 98572 | 0.99 | 0.99 | 0.99 | 0.99 | 0.00 | 0.98 | 0.98 | 0.99 | 0.99 |\n| CD4-positive, alpha-beta T cell | 86890 | 0.58 | 0.81 | 0.85 | 0.80 | 0.00 | 0.56 | 0.41 | 0.59 | 0.81 |\n| CD8-positive, alpha-beta T cell | 67971 | 0.68 | 0.80 | 0.84 | 0.79 | 0.00 | 0.69 | 0.54 | 0.65 | 0.81 |\n| neutrophil | 52085 | 0.96 | 0.98 | 0.98 | 0.98 | 0.00 | 0.95 | 0.95 | 0.95 | 0.98 |\n| macrophage | 56393 | 0.82 | 0.84 | 0.92 | 0.86 | 0.00 | 0.81 | 0.70 | 0.74 | 0.91 |\n| plasma cell | 20697 | 0.96 | 0.98 | 0.98 | 0.99 | 0.00 | 0.98 | 0.96 | 0.98 | 0.99 |\n| monocyte | 18581 | 0.48 | 0.47 | 0.79 | 0.59 | 0.00 | 0.49 | 0.45 | 0.56 | 0.67 |\n| classical monocyte | 14982 | 0.66 | 0.70 | 0.83 | 0.71 | 0.00 | 0.71 | 0.64 | 0.74 | 0.79 |\n| erythrocyte | 13115 | 0.97 | 0.97 | 0.97 | 0.98 | 0.00 | 0.96 | 0.96 | 0.97 | 0.98 |\n| natural killer cell | 12426 | 0.70 | 0.77 | 0.81 | 0.77 | 0.00 | 0.74 | 0.69 | 0.74 | 0.77 |\n| naive thymus-derived CD4-positive, alpha-beta T cell | 8563 | 0.23 | 0.11 | 0.34 | 0.04 | 0.00 | 0.29 | 0.23 | 0.32 | 0.32 |\n| T cell | 5814 | 0.42 | 0.37 | 0.64 | 0.25 | 0.00 | 0.39 | 0.36 | 0.45 | 0.59 |\n| mast cell | 5835 | 0.87 | 0.89 | 0.96 | 0.91 | 0.00 | 0.96 | 0.90 | 0.92 | 0.95 |\n| intermediate monocyte | 5099 | 0.36 | 0.21 | 0.64 | 0.38 | 0.00 | 0.34 | 0.38 | 0.49 | 0.57 |\n| mature NK T cell | 4298 | 0.50 | 0.52 | 0.67 | 0.49 | 0.00 | 0.53 | 0.39 | 0.49 | 0.63 |\n| mononuclear phagocyte | 5274 | 0.70 | 0.00 | 0.91 | 0.39 | 0.00 | 0.86 | 0.63 | 0.63 | 0.89 |\n| CD4-positive, alpha-beta thymocyte | 4680 | 0.41 | 0.02 | 0.68 | 0.36 | 0.00 | 0.62 | 0.39 | 0.50 | 0.69 |\n| regulatory T cell | 2112 | 0.23 | 0.05 | 0.45 | 0.05 | 0.00 | 0.24 | 0.25 | 0.34 | 0.46 |\n| hematopoietic precursor cell | 2015 | 0.52 | 0.69 | 0.81 | 0.76 | 0.00 | 0.55 | 0.60 | 0.63 | 0.74 |\n| gamma-delta T cell | 1460 | 0.45 | 0.34 | 0.77 | 0.29 | 0.00 | 0.41 | 0.44 | 0.43 | 0.76 |\n| basophil | 1085 | 0.54 | 0.06 | 0.92 | 0.50 | 0.00 | 0.82 | 0.64 | 0.70 | 0.86 |\n| tissue-resident macrophage | 1337 | 0.64 | 0.00 | 0.86 | 0.56 | 0.00 | 0.68 | 0.53 | 0.57 | 0.77 |\n| non-classical monocyte | 1070 | 0.22 | 0.37 | 0.46 | 0.32 | 0.00 | 0.24 | 0.34 | 0.41 | 0.56 |\n| activated CD8-positive, alpha-beta T cell | 1138 | 0.35 | 0.03 | 0.28 | 0.13 | 0.00 | 0.57 | 0.26 | 0.35 | 0.62 |\n| naive thymus-derived CD8-positive, alpha-beta T cell | 970 | 0.13 | 0.00 | 0.53 | 0.11 | 0.00 | 0.21 | 0.15 | 0.18 | 0.34 |\n| myeloid leukocyte | 762 | 0.15 | 0.00 | 0.64 | 0.03 | 0.00 | 0.58 | 0.24 | 0.24 | 0.67 |\n| erythroid progenitor cell | 890 | 0.59 | 0.63 | 0.81 | 0.71 | 0.00 | 0.63 | 0.76 | 0.74 | 0.76 |\n| innate lymphoid cell | 762 | 0.21 | 0.20 | 0.49 | 0.32 | 0.00 | 0.51 | 0.22 | 0.26 | 0.46 |\n| hematopoietic stem cell | 807 | 0.68 | 0.78 | 0.83 | 0.78 | 0.00 | 0.71 | 0.79 | 0.85 | 0.86 |\n| granulocyte | 749 | 0.13 | 0.02 | 0.72 | 0.53 | 0.00 | 0.30 | 0.39 | 0.38 | 0.77 |\n| CD8-positive, alpha-beta thymocyte | 727 | 0.42 | 0.08 | 0.42 | 0.19 | 0.00 | 0.64 | 0.35 | 0.44 | 0.69 |\n| activated CD4-positive, alpha-beta T cell | 568 | 0.04 | 0.00 | 0.40 | 0.04 | 0.00 | 0.17 | 0.13 | 0.15 | 0.32 |\n| myeloid dendritic cell | 500 | 0.11 | 0.18 | 0.48 | 0.25 | 0.00 | 0.20 | 0.21 | 0.25 | 0.36 |\n| platelet | 363 | 0.72 | 0.87 | 0.92 | 0.94 | 0.00 | 0.59 | 0.77 | 0.81 | 0.90 |\n| common myeloid progenitor | 451 | 0.00 | 0.63 | 0.78 | 0.70 | 0.00 | 0.77 | 0.81 | 0.91 | 0.88 |\n| thymocyte | 455 | 0.00 | 0.02 | 0.42 | 0.23 | 0.00 | 0.36 | 0.27 | 0.59 | 0.91 |\n| microglial cell | 315 | 0.11 | 0.04 | 0.42 | 0.04 | 0.00 | 0.44 | 0.23 | 0.23 | 0.45 |\n| colon macrophage | 209 | 0.27 | 0.01 | 0.72 | 0.00 | 0.00 | 0.52 | 0.26 | 0.39 | 0.83 |\n| leukocyte | 187 | 0.09 | 0.01 | 0.34 | 0.01 | 0.00 | 0.16 | 0.16 | 0.20 | 0.43 |\n| hematopoietic cell | 100 | 0.00 | 0.04 | 0.93 | 0.69 | 0.00 | 0.12 | 0.48 | 0.58 | 0.79 |\n| plasmacytoid dendritic cell | 68 | 0.28 | 0.49 | 0.55 | 0.38 | 0.00 | 0.05 | 0.38 | 0.49 | 0.67 |\n| myeloid cell | 81 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 | 0.31 | 0.18 | 0.40 | 0.84 |\n| Langerhans cell | 76 | 0.27 | 0.27 | 0.73 | 0.53 | 0.00 | 0.10 | 0.25 | 0.31 | 0.51 |\n| T follicular helper cell | 6 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.10 | 0.71 | 0.73 |\n| erythroid lineage cell | 2 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.00 | 0.00 |"
 }

celltypist.pkl

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pynndescent_index.joblib → faiss_index.index

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metadata.json

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-{
-    "popv_version": "0.5.0",
-    "anndata_version": "0.11.3",
-    "setup_dict": {
-        "ref_labels_key": "popv_labels",
-        "ref_batch_key": "batch_key",
-        "unknown_celltype_label": "unassigned"
-    },
-    "prediction_keys": [
-        "popv_celltypist_prediction",
-        "popv_knn_bbknn_prediction",
-        "popv_knn_harmony_prediction",
-        "popv_knn_on_scvi_prediction",
-        "popv_onclass_prediction",
-        "popv_scanvi_prediction",
-        "popv_svm_prediction",
-        "popv_xgboost_prediction"
-    ],
-    "method_kwargs": {},
-    "methods": [
-        "CELLTYPIST",
-        "KNN_BBKNN",
-        "KNN_HARMONY",
-        "KNN_SCVI",
-        "ONCLASS",
-        "SCANVI_POPV",
-        "Support_Vector",
-        "XGboost"
-    ],
-    "cellxgene_url": "https://cellxgene.cziscience.com/e/c5d88abe-f23a-45fa-a534-788985e93dad.cxg/"
-}

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