I have several real-time z-stack image series of thrombi captured simultaneously in 2 channels (red/ green) with each series having 30-40 slices to include the entire thrombus. I need to calculate the volume of the thrombi from these z-stack images. Since the 2 colors label different components of the thrombus, ideally I need to have a composite 3D structure and then calculate the volume. How do I do this on ImageJ?
So far, based on other similar posts, at best I could split the channels, threshold each channel separately, and then use a macro to calculate the volume of the entire z-stack.
I am looking for a method to do a 2-colour 3D reconstruction and then calculate the volume, which would be ideal.
Any suggestions are most welcome.
Dear Nitty Mathews
You can follow this:
Open your image at ImageJ > Image > Color > Channels Tool (pop up a window) > More > Make Composite > Select your desired channels from the list;
Now do the z-stacking
Image > Stacks > Z-project > select your desired slices > Ok
I think it may help you to analyze a 2-colour composite 3D image of your sample.
Best wishes.
Thank you Satyendra Mondal for your time.
Making a composite of the z-stack has not been a problem, and I have been able to follow the next step you mentioned (Z-project-->); however I still do not see an option for volume measurement of a composite z-stack.
Will keep trying. Thanks again.
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