ImageJ-microglia-counter-macro

Macro for ImageJ for counting Iba1/DAPI double positive cells in the grey matter of cerebral cortex

To install, copy the .txt file to your ImageJ/plugins/Macros folder. Then go to Plugins->Macros->Install in ImageJ and choose "Microglia counter.txt".

To change settings press 0 or go to "Plugins->Macros->Settings for microglia counter"

To run the macro:

1. Open two 8-bit grayscale channels: one with DAPI and one with Iba1 (sample images on github).
2. Press 1 or go to "Plugins->Macros->Microglia counter".