omicverse.io.read_nanostring¶

omicverse.io.read_nanostring(path, *, counts_file, meta_file, fov_file=None)[source]¶

Read Nanostring formatted dataset.

This follows the Squidpy nanostring reader layout: - obsm['spatial']: local cell center coordinates. - obsm['spatial_fov']: global cell center coordinates. - uns['spatial'][fov]['images']: hires and segmentation images from

CellComposite and CellLabels.

uns['spatial'][fov]['metadata']: optional FOV-level metadata.
If geometry-like columns exist in metadata, writes obs['geometry'] as WKT strings to match read_visium_hd_seg format for ov.pl.spatialseg.

Return type:: AnnData