Github.com/uhlerlab/spatialfusion/uni-embeddings-for-spatialfusion

Automatic Tools and Workflows
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Unimodal Embeddings for SpatialFusion

These WDL workflows generate the unimodal embedding inputs used by SpatialFusion:

  • GenerateUnimodalEmbeddingsForSpatialFusion generates both scGPT.parquet and UNI.parquet from one Terra submission.
  • GenerateScgptEmbeddingsForSpatialFusion generates scGPT.parquet from spatial transcriptomics data.
  • GenerateUniEmbeddingsForSpatialFusion generates UNI.parquet from H&E / whole-slide imaging data.

Use the combined workflow if you want both o

This is a companion discussion topic for the original entry at github.com/uhlerlab/spatialfusion/uni-embeddings-for-spatialfusion