Batch integration asks whether data from different experiments can be combined without losing biological differences.
Explanatory profile: source reviewed · Automated source review, 2026-09-16. This does not change the review status of its results.
| Property | Description and evidence |
|---|---|
| Record type | Generic biological tasktheislab/scib official source; openproblems-bio/openproblems official source · scIB README: Metrics; Resources; Open Problems benchmark directory: Batch Integration (https://openproblems.bio/benchmarks/) |
| Inputs | Annotated single-cell data with batch labels and biological informationtheislab/scib official source; openproblems-bio/openproblems official source · scIB README: Metrics; Resources; Open Problems benchmark directory: Batch Integration (https://openproblems.bio/benchmarks/) |
| Assessment | Separate biological-conservation and batch-removal assessmentstheislab/scib official source; openproblems-bio/openproblems official source · scIB README: Metrics; Resources; Open Problems benchmark directory: Batch Integration (https://openproblems.bio/benchmarks/) |
| Biological conservation examples | Cell-type silhouette, ARI/NMI, isolated-label and trajectory conservation metricstheislab/scib official source · scIB README: Metrics / Biological Conservation |
| Batch-removal examples | Batch silhouette, graph iLISI, kBET and graph connectivitytheislab/scib official source · scIB README: Metrics / Batch Correction |
| Comparator guidance | scIB documents established integration methods including Harmony, MNN and scVI; the choice must match the task inputs.theislab/scib official source · scIB README: Integration Tools |
| Datasets | Not extracted or verified for this record. |
| Organisms | Not extracted or verified for this record. |
| Assays | Not extracted or verified for this record. |
| Splits | Not extracted or verified for this record. |
| Adaptation | Not extracted or verified for this record. |
Conceptual overview, not an executable specification.
Evaluate both sides of the problem: cells should no longer separate mainly by technical batch, while cell identities and meaningful variation remain distinguishable. scIB provides metrics for these two objectives. Open Problems publishes a concrete batch-integration task; that task and the scIB software are resources, not interchangeable protocol identities.
theislab/scib official source; openproblems-bio/openproblems official source · scIB README: Metrics; Resources; Open Problems benchmark directory: Batch Integration (https://openproblems.bio/benchmarks/)These associations do not imply identical protocols or interchangeable scores.
Release 2026-09-16-d74d282221a9 · 0 evaluations · 0 metric rows. Different protocols are not a single leaderboard.
No evaluations linked in this release.
Primary-source description checked by an automated research assistant. This is profile review, not independent execution or numerical reproduction.
Stable record: catalog-task-cell-batch-integrationApplicability is distinct from a completed evaluation.
Release 2026-09-16-d74d282221a9 · Record review: discovered
Stable ID: catalog-task-cell-batch-integration