[Dataset] Units/scale factors for coordinates in Mouse_E11.5_embryo.h5ad (spatial, z_correction)

[myweihp]

Hello,

Could you please confirm the physical units / scale factors for the released datasets from https://spateodata.aristoteleo.com/ so I can convert coordinates to µm/mm?

1. In Mouse_E11.5_embryo.h5ad, what are the units of obsm["spatial"] (especially XY), and is there a µm-per-unit factor?
2. In Mouse_E11.5_embryo.h5ad, what are the units of obsm["z_correction"] (especially the Z column)? Is there a µm-per-unit factor?
3. In Mouse_E9.5_embryo.h5ad, are obsm["global_align_spatial"] / obsm["3d_align_spatial"] already in µm (physical units), or do they also require a scale factor?

Thanks a lot!

Best regards,
Huapeng

[myweihp]

@Xiaojieqiu Hi! Just a gentle ping — could you please take a look when you have a moment? Thank you!

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