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Logistic regression (log scran)

Logistic Regression estimates parameters of a logistic function for multivariate classification tasks. Here, we use 100-dimensional whitened PCA coordinates as independent variables, and the model minimises the cross entropy loss over all cell type classes.

24 evaluations · 24 results

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

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Logistic regression (log scran)	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)	0.772 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.804 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.484 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.827 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.84 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.791 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.942 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.94 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.636 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.945 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.938 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.632 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.805 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.776 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.428 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.925 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.924 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.876 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.245 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.29 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.225 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)
Configuration: Logistic regression (log scran)	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)	0.843 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(accuracy)
Configuration: Logistic regression (log scran)	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)	0.842 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1)
Configuration: Logistic regression (log scran)	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)	0.709 f1-macro fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Logistic regression (log scran) 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(logistic_regression), paramset(log scran), metric(f1_macro)

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