Tommaso Biancalani

Mh - I am a bit confused about what is happening. When you map, you don't want to align the single cell ATAC-seq data with the spatial RNA data, because...

Yes data from SC and ST should be as similar as possible. So use raw counts for both, or normalized for both. TBH, we found that with some loss functions...

I would use raw data and `cluster` method for integration!

You got nice patterns - thanks for using Tangram. To validate your result, it'd be better to consult a biologist as our team is composed of method developers / comp...

Thanks for taking care of this Shreya!