Cell density as a function of cortical depth

Question

[keon.arbabi]

Hello,

I am new to the community so please forgive any faux pas I commit.

I am looking to perform an automated cell count of in-situ hybridization labelled cells in the human cortex. More specifically, I would like to produce a density plot that communicates the pattern of labeling across the 6 cortical layers. Please find attached one of my ISH images and an example of the plot I would like to produce.

I would appreciate any information regarding what programs to use and process.

Thank you, Keon

Desired plot My ISH image

[Ram]

Please see How to add images to a Biostars post to add your images properly. You need the direct link to the image, not the link to the webpage that has the image embedded (which is what you have used here)

[Jean-Karim Heriche]

This question would have a better chance of getting an answer on the image.sc forum.

EDIT: Just saw it was already crossposted there. Please avoid crossposting.

[Ram]

Hello keon.arbabi!

It appears that your post has been cross-posted to another site: https://forum.image.sc/t/cell-density-as-a-function-of-cortical-depth/21446

This is typically not recommended as it runs the risk of annoying people in both communities. Thanks for the heads up, Jean-Karim Heriche