Visium Python Packages

tangram-sc

Spatial alignment of single cell transcriptomic data.

cell-gps

Cell-GPS spatial topology analysis for spatial omics data.

flashdeconv

Fast spatial deconvolution via leverage-score sketching — scales to million-spot datasets while preserving rare cell type signals.

llm-sc-curator

Dynamic feature distillation framework for robust zero-shot LLM annotation.

stpipeline

ST Pipeline: An automated pipeline for spatial mapping of unique transcripts

oncoordinate

Oncoordinate is an interpretable deep learning framework for single-cell and spatial transcriptomic analysis of malignancy that learns malignant and malignancy-associated cell states across epithelial, stromal, and immune lineages while remaining tightly integrated with the scverse ecosystem.