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scANVI (Seurat v3 2000 HVG)

scANVI or "single-cell ANnotation using Variational Inference" is a semi-supervised variant of the scVI(Lopez et al. 2018) algorithm. Like scVI, scANVI uses deep neural networks and stochastic optimization to model uncertainty caused by technical noise and bias in single - cell transcriptomics measurements. However, scANVI also leverages cell type labels in the generative modelling. In this approach, scANVI is used to predict the cell type labels of the unlabelled test data.

24 evaluations · 24 results

Overview

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

24 evaluations · 24 results. Different protocols are not a single leaderboard.

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-BATCH-ACCURACY: Label projection on CeNGEN (split by batch), Accuracy Dataset subset: CeNGEN (split by batch) (Open Problems label projection split)	0.262 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-BATCH-ACCURACY: Label projection on CeNGEN (split by batch), Accuracy 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test by experimental batch. Dimensions: 100955 cells, 22469 genes. 169 cell types (avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-BATCH-F1: Label projection on CeNGEN (split by batch), F1 score Dataset subset: CeNGEN (split by batch) (Open Problems label projection split)	0.224 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-BATCH-F1: Label projection on CeNGEN (split by batch), F1 score 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test by experimental batch. Dimensions: 100955 cells, 22469 genes. 169 cell types (avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-BATCH-F1-MACRO: Label projection on CeNGEN (split by batch), Macro F1 score Dataset subset: CeNGEN (split by batch) (Open Problems label projection split)	0.161 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-BATCH-F1-MACRO: Label projection on CeNGEN (split by batch), Macro F1 score 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test by experimental batch. Dimensions: 100955 cells, 22469 genes. 169 cell types (avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-RANDOM-ACCURACY: Label projection on CeNGEN (random split), Accuracy Dataset subset: CeNGEN (random split) (Open Problems label projection split)	0.652 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-RANDOM-ACCURACY: Label projection on CeNGEN (random split), Accuracy 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test randomly. Dimensions: 100955 cells, 22469 genes. 169 cell types avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-RANDOM-F1: Label projection on CeNGEN (random split), F1 score Dataset subset: CeNGEN (random split) (Open Problems label projection split)	0.569 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-RANDOM-F1: Label projection on CeNGEN (random split), F1 score 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test randomly. Dimensions: 100955 cells, 22469 genes. 169 cell types avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection CENGEN-RANDOM-F1-MACRO: Label projection on CeNGEN (random split), Macro F1 score Dataset subset: CeNGEN (random split) (Open Problems label projection split)	0.235 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection CENGEN-RANDOM-F1-MACRO: Label projection on CeNGEN (random split), Macro F1 score 100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test randomly. Dimensions: 100955 cells, 22469 genes. 169 cell types avg. 597±800 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(cengen_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-BATCH-ACCURACY: Label projection on Pancreas (by batch), Accuracy Dataset subset: Pancreas (by batch) (Open Problems label projection split)	0.96 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-BATCH-ACCURACY: Label projection on Pancreas (by batch), Accuracy Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test by experimental batch. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-BATCH-F1: Label projection on Pancreas (by batch), F1 score Dataset subset: Pancreas (by batch) (Open Problems label projection split)	0.958 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-BATCH-F1: Label projection on Pancreas (by batch), F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test by experimental batch. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-BATCH-F1-MACRO: Label projection on Pancreas (by batch), Macro F1 score Dataset subset: Pancreas (by batch) (Open Problems label projection split)	0.669 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-BATCH-F1-MACRO: Label projection on Pancreas (by batch), Macro F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test by experimental batch. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_batch), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-ACCURACY: Label projection on Pancreas (random split), Accuracy Dataset subset: Pancreas (random split) (Open Problems label projection split)	0.978 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-ACCURACY: Label projection on Pancreas (random split), Accuracy Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-F1: Label projection on Pancreas (random split), F1 score Dataset subset: Pancreas (random split) (Open Problems label projection split)	0.976 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-F1: Label projection on Pancreas (random split), F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-F1-MACRO: Label projection on Pancreas (random split), Macro F1 score Dataset subset: Pancreas (random split) (Open Problems label projection split)	0.687 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-F1-MACRO: Label projection on Pancreas (random split), Macro F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-ACCURACY: Label projection on Pancreas (random split with label noise), Accuracy Dataset subset: Pancreas (random split with label noise) (Open Problems label projection split)	0.967 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-ACCURACY: Label projection on Pancreas (random split with label noise), Accuracy Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly with 20% label noise. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random_label_noise), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-F1: Label projection on Pancreas (random split with label noise), F1 score Dataset subset: Pancreas (random split with label noise) (Open Problems label projection split)	0.964 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-F1: Label projection on Pancreas (random split with label noise), F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly with 20% label noise. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random_label_noise), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-F1-MACRO: Label projection on Pancreas (random split with label noise), Macro F1 score Dataset subset: Pancreas (random split with label noise) (Open Problems label projection split)	0.685 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection PANCREAS-RANDOM-LABEL-NOISE-F1-MACRO: Label projection on Pancreas (random split with label noise), Macro F1 score Human pancreatic islet scRNA-seq data from 6 datasets across technologies (CEL-seq, CEL-seq2, Smart-seq2, inDrop, Fluidigm C1, and SMARTER-seq). Split into train/test randomly with 20% label noise. Dimensions: 16382 cells, 18771 genes. 14 cell types (avg. 1170±1703 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(pancreas_random_label_noise), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-ACCURACY: Label projection on Tabula Muris Senis Lung (random split), Accuracy Dataset subset: Tabula Muris Senis Lung (random split) (Open Problems label projection split)	0.841 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-ACCURACY: Label projection on Tabula Muris Senis Lung (random split), Accuracy All lung cells from Tabula Muris Senis, a 500k cell-atlas from 18 organs and tissues across the mouse lifespan. Split into train/test randomly. Dimensions: 24540 cells, 17985 genes. 39 cell types (avg. 629±999 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(tabula_muris_senis_lung_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-F1: Label projection on Tabula Muris Senis Lung (random split), F1 score Dataset subset: Tabula Muris Senis Lung (random split) (Open Problems label projection split)	0.801 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-F1: Label projection on Tabula Muris Senis Lung (random split), F1 score All lung cells from Tabula Muris Senis, a 500k cell-atlas from 18 organs and tissues across the mouse lifespan. Split into train/test randomly. Dimensions: 24540 cells, 17985 genes. 39 cell types (avg. 629±999 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(tabula_muris_senis_lung_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-F1-MACRO: Label projection on Tabula Muris Senis Lung (random split), Macro F1 score Dataset subset: Tabula Muris Senis Lung (random split) (Open Problems label projection split)	0.394 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection TABULA-MURIS-SENIS-LUNG-RANDOM-F1-MACRO: Label projection on Tabula Muris Senis Lung (random split), Macro F1 score All lung cells from Tabula Muris Senis, a 500k cell-atlas from 18 organs and tissues across the mouse lifespan. Split into train/test randomly. Dimensions: 24540 cells, 17985 genes. 39 cell types (avg. 629±999 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(tabula_muris_senis_lung_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-LABS-ACCURACY: Label projection on Zebrafish (by laboratory), Accuracy Dataset subset: Zebrafish (by laboratory) (Open Problems label projection split)	0.21 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-ACCURACY: Label projection on Zebrafish (by laboratory), Accuracy 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test by laboratory. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Dataset subset: Zebrafish (by laboratory) (Open Problems label projection split)	0.226 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test by laboratory. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-LABS-F1-MACRO: Label projection on Zebrafish (by laboratory), Macro F1 score Dataset subset: Zebrafish (by laboratory) (Open Problems label projection split)	0.237 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1-MACRO: Label projection on Zebrafish (by laboratory), Macro F1 score 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test by laboratory. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-RANDOM-ACCURACY: Label projection on Zebrafish (random split), Accuracy Dataset subset: Zebrafish (random split) (Open Problems label projection split)	0.779 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-RANDOM-ACCURACY: Label projection on Zebrafish (random split), Accuracy 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test randomly. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(accuracy)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-RANDOM-F1: Label projection on Zebrafish (random split), F1 score Dataset subset: Zebrafish (random split) (Open Problems label projection split)	0.728 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-RANDOM-F1: Label projection on Zebrafish (random split), F1 score 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test randomly. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1)
Configuration: scANVI (Seurat v3 2000 HVG)	Task: Open Problems label projection ZEBRAFISH-RANDOM-F1-MACRO: Label projection on Zebrafish (random split), Macro F1 score Dataset subset: Zebrafish (random split) (Open Problems label projection split)	0.437 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-RANDOM-F1-MACRO: Label projection on Zebrafish (random split), Macro F1 score 90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test randomly. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type). Aggregation: Not reported openproblems-label primary benchmark evidence · results, dataset(zebrafish_random), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1_macro)

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