metadata
license: apache-2.0
task_categories:
- other
tags:
- biology
- single-cell
- benchmark
- bioinformatics
size_categories:
- n<1K
scBench Canonical Data Files
This dataset contains the .h5ad data files for the scBench canonical subset (30 evaluations across 5 platforms).
About scBench
scBench is a benchmark for agentic single-cell RNA-seq analysis. It evaluates whether AI agents can solve practical bioinformatics tasks with deterministic grading.
- Paper: https://arxiv.org/abs/2602.09063
- GitHub: https://github.com/latchbio/scbench
- Inspect Evals: https://github.com/UKGovernmentBEIS/inspect_evals
Files
This dataset includes 18 .h5ad files corresponding to the canonical subset:
- Platforms: Chromium, CSGenetics, Illumina, MissionBio, ParseBio
- Task categories: QC, normalization, dimensionality reduction, clustering, cell typing, differential expression, trajectory analysis
Usage
These files are used with the scBench evaluation in inspect_evals:
pip install inspect-evals
uv run inspect eval inspect_evals/scbench --model anthropic/claude-haiku-4-5-20251001
License
Apache 2.0 (following the scBench upstream license)
Citation
If you use this dataset, please cite the scBench paper:
@misc{scbench2025,
title={scBench: A Benchmark for Agentic Single Cell Data Analysis},
author={LatchBio},
year={2025},
eprint={2602.09063},
archivePrefix={arXiv}
}