deepspot-m

Generate transcriptome-wide virtual spatial transcriptomics from H&E histology with DeepSpot-M. Use when you need spatial gene expression in log1p-CPM for 224x224 tiles at about 20x, want to query protein-coding genes by symbol instead of a fixed panel, or want to run prediction across a whole slide after tiling with histolab.

Version

1.0

License

PolyForm-Noncommercial-1.0.0

Compatibility

Needs deepspotm 1.0.0 from PyPI (Python 3.10 to 3.13) plus PyTorch. Weights at ratschlab/DeepSpotM on Hugging Face are gated and licensed CC-BY-NC-SA-4.0, so request access on the model page and then run huggingface-cli login. A CUDA GPU speeds up batched inference.