spatialscape inspect

Print what a sample file contains, to help edit the dataset yaml.

Lists every obs column with its type and number of levels (with example values for categoricals), the obsm keys and their shapes, the layers, and any uns keys that look like scale information. init writes the same information into a yaml you can edit; inspect only prints it.

Usage

spatialscape inspect <PATH> [OPTIONS]

Arguments

Argument	Type	Default	Description
PATH	path	required	An .h5ad file, an AnnData Zarr store, a SpatialData Zarr store, or an R .rds / .rda holding a SpatialExperiment / SingleCellExperiment.

Options

Option	Type	Default	Description
--table	text	—	Table key inside a SpatialData store (required when the store has more than one).

Examples

A SpatialExperiment saved from R

spatialscape inspect analysis/spe_visium.rds

An h5ad written from R

spatialscape inspect Br2743.h5ad

A SpatialData store with several tables

spatialscape inspect store.zarr --table cells

See also

• spatialscape init
• Guide: Where your data comes from