Table 1 Comparison between DANCE and other popular single-cell libraries and toolkits
From: DANCE: a deep learning library and benchmark platform for single-cell analysis
Scanpy | Seurat | scvi-tools | DeepCell | Squidpy | DANCE | ||
|---|---|---|---|---|---|---|---|
Comprehensive module coverage | Single modality | ✓ | ✓ | ✓ | ✓ | ✗ | ✓ |
Multimodality | ✓ | ✓ | ✓ | ✗ | ✗ | ✓ | |
Spatial | ✓ | ✓ | ✓ | ✗ | ✓ | ✓ | |
Deep learning infrastructure | Classical deep learning | ✗ | ✗ | ✓ | ✓ | ✓ | ✓ |
GNNs | ✗ | ✗ | ✗ | ✗ | ✓ | ✓ | |
Standardized benchmarks | Benchmark datasets | ✓ | ✓ | ✗ | ✓ | ✗ | ✓ |
Task-specific algorithms | ✓ | ✓ | ✗ | ✓ | ✗ | ✓ | |
Reproducible command lines | ✗ | ✗ | ✗ | ✗ | ✗ | ✓ |