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verified publisher icon dcjones

protein info from CosMX

Open cstrlln opened this issue 1 year ago • 1 comments

Thank you for the tool!

any suggestions on how to reintegrate the surface protein staining data from CosMX (e.g CD45, panCK) after segmenting with proseg?

cstrlln avatar May 15 '24 18:05 cstrlln

Great question! I don't have a solution for this right now. In principle, you would compute the aggregate marker intensity across the polygons that proseg outputs, but I don't have a workflow for this yet.

A lot of the major platforms support (or soon will support) protein staining, so I imagine I'll develop something, but I haven't done so yet. Leaving this issue open as a reminder in the mean time.

dcjones avatar May 15 '24 23:05 dcjones