SpatialData to Xenium Explorer
Converting any SpatialData object into files that can be open by the Xenium Explorer.
Xenium Explorer is a registered trademark of 10x Genomics
You may also be interested in a pipeline for spatial-omics that uses this conversion to Xenium Explorer: see Sopa.
Features
- Conversion of the following data: images, cell boundaries (polygons), transcripts, cell-by-gene table, and cell categories (or observations).
- Image alignment can be made on the Xenium Explorer, and then the
SpatialDataobject can be updated - When working on the
SpatialDataorAnnDataobject, new cell categories can be easily and quickly added to the Explorer - When selecting cells with the "lasso tool" on the Explorer, it's easy to select back these cells on the
SpatialDataorAnnDataobject