Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
Label projection on Zebrafish (by laboratory), F1 score. Scored with F1 score on Zebrafish (by laboratory). 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).
Overview
Label projection on Zebrafish (by laboratory), F1 score. Scored with F1 score on Zebrafish (by laboratory). 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).
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluation design
Benchmarks bring together tasks and protocols. A task describes the biological question; a protocol defines a particular test.
Benchmarks
These source-backed links do not make different protocols or scores interchangeable.
Recorded evaluations
Each evaluation records what was tested and under which conditions.
- K-neighbors classifier (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- K-neighbors classifier (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Logistic regression (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Logistic regression (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Majority Vote on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Multilayer perceptron (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Multilayer perceptron (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- Random Labels on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- scArches+scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- scArches+scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
Run instructions
No runnable recipe has been reviewed for this task. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
A task describes a biological question. Choose a linked protocol to obtain concrete split and scoring instructions.
Published comparisons
Explore the results reported under one evaluation protocol. Each figure keeps its source, dataset and metric together; it is not a ranking across studies. The pooled view gathers every source table that reports the same metric and names what it does not hold constant.
Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
f1 (fraction) · Higher values are better for this metric.
Every method Open Problems label projection reports on Label projection on Zebrafish (by laboratory), F1 score, scored with F1 score on Zebrafish (by laboratory).
Evaluation protocol · Zebrafish (by laboratory) (Open Problems label projection split)
- K-neighbors classifier (log CP10k) · Configuration · Author-reported evaluation0.14229308051699885
- Logistic regression (log CP10k) · Configuration · Author-reported evaluation0.2875142098321384
- True Labels · Method · Author-reported evaluation1
- Majority Vote · Configuration · Author-reported evaluation0
- Random Labels · Method · Author-reported evaluation0.03865262268956753
- Multilayer perceptron (log CP10k) · Configuration · Author-reported evaluation0.27619561215999017
- XGBoost (log CP10k) · Configuration · Author-reported evaluation0.27834682162039986
- Multilayer perceptron (log scran) · Configuration · Author-reported evaluation0.3068204107545123
- K-neighbors classifier (log scran) · Configuration · Author-reported evaluation0.2018575253249313
- Logistic regression (log scran) · Configuration · Author-reported evaluation0.29034414714676077
- XGBoost (log scran) · Configuration · Author-reported evaluation0.2980572067652053
- Seurat reference mapping (SCTransform) · Configuration · Author-reported evaluation0.41030222359279184
- scArches+scANVI (Seurat v3 2000 HVG) · Configuration · Author-reported evaluation0.1309776775288379
- scArches+scANVI (All genes) · Configuration · Author-reported evaluation0.25597266236180566
- scANVI (Seurat v3 2000 HVG) · Configuration · Author-reported evaluation0.22606919943933246
- scANVI (All genes) · Configuration · Author-reported evaluation0.2442120891364309
Source order is preserved. Plotted marks show point estimates; uncertainty, where reported, is retained in the printed values and table. Differences do not establish statistical significance.
openproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), metric(f1)Values, uncertainty and evidence
| Tested entity | Printed value | Uncertainty | Evidence |
|---|---|---|---|
| K-neighbors classifier (log CP10k) · Configuration | 0.14229308051699885 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(k_neighbors_classifier), paramset(log CP10k), metric(f1) |
| Logistic regression (log CP10k) · Configuration | 0.2875142098321384 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(logistic_regression), paramset(log CP10k), metric(f1) |
| True Labels · Method | 1 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(true_labels), paramset(none), metric(f1) |
| Majority Vote · Configuration | 0 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(majority_vote), paramset(none), metric(f1) |
| Random Labels · Method | 0.03865262268956753 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(random_labels), paramset(none), metric(f1) |
| Multilayer perceptron (log CP10k) · Configuration | 0.27619561215999017 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(multilayer_perceptron), paramset(log CP10k), metric(f1) |
| XGBoost (log CP10k) · Configuration | 0.27834682162039986 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(xgboost), paramset(log CP10k), metric(f1) |
| Multilayer perceptron (log scran) · Configuration | 0.3068204107545123 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(multilayer_perceptron), paramset(log scran), metric(f1) |
| K-neighbors classifier (log scran) · Configuration | 0.2018575253249313 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(k_neighbors_classifier), paramset(log scran), metric(f1) |
| Logistic regression (log scran) · Configuration | 0.29034414714676077 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(logistic_regression), paramset(log scran), metric(f1) |
| XGBoost (log scran) · Configuration | 0.2980572067652053 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(xgboost), paramset(log scran), metric(f1) |
| Seurat reference mapping (SCTransform) · Configuration | 0.41030222359279184 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(seurat_reference_mapping), paramset(SCTransform), metric(f1) |
| scArches+scANVI (Seurat v3 2000 HVG) · Configuration | 0.1309776775288379 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scarches_scanvi), paramset(Seurat v3 2000 HVG), metric(f1) |
| scArches+scANVI (All genes) · Configuration | 0.25597266236180566 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scarches_scanvi), paramset(All genes), metric(f1) |
| scANVI (Seurat v3 2000 HVG) · Configuration | 0.22606919943933246 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1) |
| scANVI (All genes) · Configuration | 0.2442120891364309 fraction | Not reported | Author-reported evaluation · source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(All genes), metric(f1) |
Scope and limitations
- Results published by the Open Problems project, source checked but not independently reproduced.
- This covers the label projection task at v1.0.0 only, not the whole Open Problems suite.
- true_labels and random_labels are controls that bound the scale, not competing methods.
- Preprocessing is part of the run, so the same method appears once per parameter set.
Source transcription and grouping reviewed by automated source review on 2026-09-18. These experiments were not independently reproduced by rewire.
Tested entities and results
Release 2026-09-17-134cd1815de8 · 16 evaluations · 16 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| K-neighbors classifier (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: K-neighbors classifier (log CP10k)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.14229308051699885 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(k_neighbors_classifier), paramset(log CP10k), metric(f1) Source checking is not independent reproduction. |
| K-neighbors classifier (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: K-neighbors classifier (log scran)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.2018575253249313 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(k_neighbors_classifier), paramset(log scran), metric(f1) Source checking is not independent reproduction. |
| Logistic regression (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Logistic regression (log CP10k)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.2875142098321384 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(logistic_regression), paramset(log CP10k), metric(f1) Source checking is not independent reproduction. |
| Logistic regression (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Logistic regression (log scran)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.29034414714676077 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(logistic_regression), paramset(log scran), metric(f1) Source checking is not independent reproduction. |
| Majority Vote on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Majority VoteTask: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(majority_vote), paramset(none), metric(f1) Source checking is not independent reproduction. |
| Multilayer perceptron (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Multilayer perceptron (log CP10k)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.27619561215999017 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(multilayer_perceptron), paramset(log CP10k), metric(f1) Source checking is not independent reproduction. |
| Multilayer perceptron (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Multilayer perceptron (log scran)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.3068204107545123 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(multilayer_perceptron), paramset(log scran), metric(f1) Source checking is not independent reproduction. |
| Random Labels on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Method: Random LabelsTask: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.03865262268956753 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(random_labels), paramset(none), metric(f1) Source checking is not independent reproduction. |
| scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: scANVI (All genes)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.2442120891364309 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(All genes), metric(f1) Source checking is not independent reproduction. |
| scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: scANVI (Seurat v3 2000 HVG)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.22606919943933246 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scanvi), paramset(Seurat v3 2000 HVG), metric(f1) Source checking is not independent reproduction. |
| scArches+scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: scArches+scANVI (All genes)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.25597266236180566 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scarches_scanvi), paramset(All genes), metric(f1) Source checking is not independent reproduction. |
| scArches+scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: scArches+scANVI (Seurat v3 2000 HVG)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.1309776775288379 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(scarches_scanvi), paramset(Seurat v3 2000 HVG), metric(f1) Source checking is not independent reproduction. |
| Seurat reference mapping (SCTransform) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: Seurat reference mapping (SCTransform)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.41030222359279184 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(seurat_reference_mapping), paramset(SCTransform), metric(f1) Source checking is not independent reproduction. |
| True Labels on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Method: True LabelsTask: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 1 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(true_labels), paramset(none), metric(f1) Source checking is not independent reproduction. |
| XGBoost (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: XGBoost (log CP10k)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.27834682162039986 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(xgboost), paramset(log CP10k), metric(f1) Source checking is not independent reproduction. |
| XGBoost (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score Configuration: XGBoost (log scran)Task: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 scoreDataset subset: Zebrafish (by laboratory) (Open Problems label projection split) 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). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.2980572067652053 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedopenproblems-label primary benchmark evidence · results, dataset(zebrafish_labs), method(xgboost), paramset(log scran), metric(f1) Source checking is not independent reproduction. |
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of discovery-benchmark-open-problems Individual claims | openproblems-label primary benchmark evidence results, dataset(zebrafish_labs), metric(f1) Version: v1.0.0 | source checked automated source review · 2026-09-18 Audit detailsPrimary-source transcription with no human sign-off and no independent reproduction. Field: Claim: open-problems-association-zebrafish-labs-f1 Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
Release 2026-09-17-134cd1815de8 · Record review: source checked
1 source records and release history
Download this releaseTechnical metadata and extraction receipts
Stable ID: open-problems-task-zebrafish-labs-f1
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- cells-tissues
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- Label projection on Zebrafish (by laboratory), F1 score
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- F1 score
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- Zebrafish (by laboratory)
- protocol
- 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).
- source locator
- results, dataset(zebrafish_labs), metric(f1)
- comparison panels
- id: open-problems-panel-zebrafish-labs-f1; title: Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score; protocol id: open-problems-task-zebrafish-labs-f1; dataset id: open-problems-dataset-zebrafish-by-laboratory; metric: f1; unit: fraction; direction: higher; result ids: open-problems-result-k-neighbors-classifier-log-cp10k-zebrafish-labs-f1-f1; open-problems-result-logistic-regression-log-cp10k-zebrafish-labs-f1-f1; open-problems-result-true-labels-zebrafish-labs-f1-f1; open-problems-result-majority-vote-zebrafish-labs-f1-f1; open-problems-result-random-labels-zebrafish-labs-f1-f1; open-problems-result-multilayer-perceptron-log-cp10k-zebrafish-labs-f1-f1; open-problems-result-xgboost-log-cp10k-zebrafish-labs-f1-f1; open-problems-result-multilayer-perceptron-log-scran-zebrafish-labs-f1-f1; open-problems-result-k-neighbors-classifier-log-scran-zebrafish-labs-f1-f1; open-problems-result-logistic-regression-log-scran-zebrafish-labs-f1-f1; open-problems-result-xgboost-log-scran-zebrafish-labs-f1-f1; open-problems-result-seurat-reference-mapping-sctransform-zebrafish-labs-f1-f1; open-problems-result-scarches-plus-scanvi-seurat-v3-2000-hvg-zebrafish-labs-f1-f1; open-problems-result-scarches-plus-scanvi-all-genes-zebrafish-labs-f1-f1; open-problems-result-scanvi-seurat-v3-2000-hvg-zebrafish-labs-f1-f1; open-problems-result-scanvi-all-genes-zebrafish-labs-f1-f1; source ids: expansion-p3-open-problems; source locator: results, dataset(zebrafish_labs), metric(f1); context: Every method Open Problems label projection reports on Label projection on Zebrafish (by laboratory), F1 score, scored with F1 score on Zebrafish (by laboratory).; caveats: Results published by the Open Problems project, source checked but not independently reproduced.; This covers the label projection task at v1.0.0 only, not the whole Open Problems suite.; true_labels and random_labels are controls that bound the scale, not competing methods.; Preprocessing is part of the run, so the same method appears once per parameter set.; review: method: automated_source_review; date: 2026-09-18
Related records
- part of: Open Problems
- subject: Open Problems label projection ZEBRAFISH-LABS-F1: part of discovery-benchmark-open-problems
- benchmark: K-neighbors classifier (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: K-neighbors classifier (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Logistic regression (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Logistic regression (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Majority Vote on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Multilayer perceptron (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Multilayer perceptron (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Random Labels on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: scArches+scANVI (All genes) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: scArches+scANVI (Seurat v3 2000 HVG) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: Seurat reference mapping (SCTransform) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: True Labels on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: XGBoost (log CP10k) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score
- benchmark: XGBoost (log scran) on Open Problems label projection ZEBRAFISH-LABS-F1: Label projection on Zebrafish (by laboratory), F1 score