Gridding visualization with h&e image out of frame

[Rabitta99]

I followed the tutorial for Xenium data analysis with spatial trajectory inference to perform all analysis till clustering and start CCI gridding, but my H&E image is not aligned perfectly to the gridding.

Is this due to any mistakes from my image registration? How should I fix the issue?

I attached the gridding result below. [my registered h&e is too large to upload]

All the code follows tutorial and I am using 10x Adult Heart Xenium data. https://www.10xgenomics.com/datasets/human-heart-data-xenium-human-multi-tissue-and-cancer-panel-1-standard

For image registration, I am using 10x tutorial/step3. https://www.10xgenomics.com/analysis-guides/he-to-xenium-dapi-image-registration-with-fiji

Thank you for answering!

[jpark27]

Hi, @Rabitta99! I come across same issue and wonder you found any solution on this?