scverse / squidpy Star 511 Code Issues Pull requests Spatial Single Cell Analysis in Python data-visualization spatial-analysis image-analysis single-cell-genomics single-cell-rna-seq spatial-transcriptomics squidpy Updated Sep 8, 2025 Python
theislab / ncem Star 112 Code Issues Pull requests Learning cell communication from spatial graphs of cells tensorflow glm cvae encoder-decoder-model gnn scanpy cell-cell-interaction cell-cell-communication squidpy Updated Jan 15, 2024 Python
Nuwa-genomics / Nuwa Star 4 Code Issues Pull requests A bioinformatics web app for single cell RNA seq analysis. data-science bioinformatics deep-learning web-ui transcriptomics single-cell spatial-transcriptomics trajectory-inference scanpy streamlit squidpy Updated Mar 24, 2024 Python