Comparing cell type abundance acroos samples calculated in differnt runs

Thank you very much for participating in my topic


I have a question regaarding cell type abunabce in spots.

Is it accurate to compare cell types abundance of the same cell type in two different spatial samples caluclated seperately with the same parameters?

what is the best possible way to do this, is visual isnpection is enough ?

Single cell reference data: number of cells, number of cell types, technology type (e.g. mix of 10X 3’ and 5’)

The reference contains 20k cells seperated into 36 subtypes. The library was contructed using 10x 3’ kit

Spatial data: number of locations numbers, technology type (e.g. Visium, ISS, Nanostring WTA)

a range between 1556- 1921 of spots on Visium slides