I noticed that the volume measured and integrated density from the 3D roi manager is different that the one from the 3D object counter.
So for example, if you run the following:
run("3D Manager"); run("Confocal Series (2.2MB)"); run("Duplicate...", "duplicate channels=2"); id=getImageID() run("Set 3D Measurements", "volume surface integrated_density mean_gray_value bounding_box dots_size=5 font_size=10 show_numbers white_numbers store_results_within_a_table_named_after_the_image_(macro_friendly) redirect_to=none"); run("3D object counter...", "threshold=67 slice=12 min.=10 max.=4000000 objects statistics"); Ext.Manager3D_AddImage(); Ext.Manager3D_Select(0); selectImage(id); Ext.Manager3D_Quantif(); Ext.Manager3D_Measure();
Then the Integrated density is 44,394,828 according to the 3D roi manager but 44,397,792 according to the statistics of the 3D object counter.
So my question is which is more accurate ? Why are the results different ?
Thank you very much