Single-cell Analysis / R package
SpatialExperiment
Keep spatial coordinates and image metadata aligned with expression assays in a Bioconductor object.
Best fit
R users exchanging tissue expression data between tools that expect a common spatial format.
What you need
R and Bioconductor with an assay, matching metadata, and spatial coordinates.
What to check
The object stores measurements and coordinates but does not validate image alignment or cell identities.