OmicVerse Built-in Datasets

ov.datasets provides 30+ ready-to-use datasets with automatic download, caching, and fallback to mock data. Use these instead of manually downloading files or relying on scanpy.datasets.

When to Use This Module

• Tutorials/demos: Load standard benchmarks (PBMC3k, Paul15, dentate gyrus) with one function call
• Testing pipelines: Use create_mock_dataset() to generate synthetic data without downloads
• Gene set analysis: Use predefined_signatures for curated GMT gene sets (cell cycle, gender, mitochondrial, tissue-specific)
• Velocity workflows: Load pre-formatted datasets with spliced/unspliced layers

Dataset Catalog

Single-Cell