suerle

Hi Thanks for providing this amazing tool! I would like to visualise expression levels in multiple tissue sections simultaneously using SpatialFeaturePlot() with alpha = c(0, 1) to mask zero count...

Hi, Thanks for this great tool. NICHES has worked well for me in the past. However, now I am running into "Error: No cell overlap between new meta data and...

Running CSIDE on across multiple tissue sections

1

Thanks for providing this amazing tool! I was wondering if there is a way to infer cell-type-specific DEGs using CSIDE across multiple Visium tissue sections after running RCTD individually on...

Extending spatial NICHES to 3D

1

I was wondering if there is a way to use NICHES to identify ligand receptor networks in 3D spatial neighbourhoods, i.e. add a z-position to each spatial spot before identifying...