can i use this method for STRNA seq

[solivehong]

hi author

can i use this method for STRNA seq ,my data format have (count x y mid) col, can it work ?

best

[katosh]

Hi @solivehong,

Thank you for reaching out! I’d be happy to help clarify.

Could you specify whether you’re aiming to use RNA counts from your spatial RNA-seq data to infer cell-state density, or if you’re interested in deriving spatial density (e.g., crowding effects) based on cell positions using Mellon?

The first approach, inferring cell-state density from RNA counts, should work smoothly without any constraints. The second, using cell positions to assess spatial density, is also feasible with Mellon, though you might need to adjust certain parameters as we haven’t specifically optimized them for spatial density analyses.

Let me know if you have further questions or need additional clarification!

Best, Dominik