README.md

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license: apache-2.0
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### Introduction

We propose the **MiniAtlas** dataset, containing more than 100,000 scATAC-seq with paired scRNA-seq as training data, across 19 tissues and 56 cell types, facilitating the training of foundation models. This dataset can be used to training single-cell multiomics fundation model.

![image-20250204135812866](./assets/overview.png)

### Subsets

This dataset is divided into four subsets to accommodate different research needs and access limitations:

1. `full_atlas_atac.h5ad` and `full_atlas_rna.h5ad` (~120k samples): full data of MiniAtlas, containing all tissues and cell types. 
2. Evaluation set for different tissues: containing three tissues (Kidney, PBMC, BMMC), can be used to cell-type annotation or RNA-prediction fine-tuning and evaluation.

### Citation

If you find MiniAtlas useful for your research and applications, please cite using this BibTeX:

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