-
Notifications
You must be signed in to change notification settings - Fork 46
Open
Description
Hi,
I am using spatialdata-io v0.3.0 and trying to read the data from the Xenium bundle with this command
xenium_bundle_path = "/path/to/xenium/data"
zarr_path = "/path/to/workdir"
sdata = xenium(xenium_bundle_path)
but I got this error:
ValueError: Expected files in the morphology focus directory to be named as morphology_focus_0000.ome.tif to morphology_focus_0003.ome.tif, found {'ch0000_dapi.ome.tif', 'ch0001_atp1a1_cd45_e-cadherin.ome.tif', 'ch0003_alphasma_vimentin.ome.tif', 'ch0002_18s.ome.tif'}
I think this may have happened because I am using new Xenium version and spatialdata-io doesn't support it yet:
Instrument software version | 4.0.1.4
Analysis version | xenium-4.0.1.0
Metadata
Metadata
Assignees
Labels
No labels