Quentin Blampey

Hi @jeffquinn-msk, I'll close this issue since I believe this is only due to a very high number of patches. For Xenium 5k, I recommend using [`proseg`](https://gustaveroussy.github.io/sopa/tutorials/api_usage/#proseg) instead of Baysor,...

Hello @lguerard, Sopa should show the Baysor boundaries by default, and you should be able to choose the segmentation you want to show (exactly as you did, using shapes_key), so...

Hello @lguerard, I saw Luca recommended trying Napari. Did you try that? Napari is more flexible than the Xenium Explorer, and better for developers. The Xenium Explorer is mainly used...

Yes, please report back! Regarding the documentation, I was actually intending to update it to mention Napari in the tutorials For now, I only mention the Xenium Explorer and `spatialdata-plot`,...

Hi @lguerard, I added some comments about Napari in the new [API tutorial](https://gustaveroussy.github.io/sopa/tutorials/api_usage/)! Regarding your issue @KunHHE, do you still experience this issue with `sopa==2.0.0`?

Hi @sunshx-bioinfo, It's not straightforward, but it's possible to use [spatialdata.rasterize](https://spatialdata.scverse.org/en/latest/generated/spatialdata.rasterize.html) to convert the geometries into labels (i.e., an image), and then save it to PNG using any python library...

Alright, I understand, thanks for the extra details! Is it something you'd like to see inside Sopa, or will you always prefer the QuPath way to do it?

Okay thanks, in that case could you please give me more details (or a link to a documentation/manual) that explains this feature? Regarding the cell properties, they are indeed not...

Thanks for the details, I'll keep that in mind and work on this when possible (probably not before late September or October). Regarding export to QuPath, @stergioc just told me...

Hi @sunshx-bioinfo, I've been working on a new version of Sopa and I prioritized this over the object classification, sorry... It's still on my todo-list, but I don't know when...