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Re: Select largest ROI from multiple

Posted by Krs5 on Jan 18, 2016; 9:25am
URL: http://imagej.273.s1.nabble.com/Select-largest-ROI-from-multiple-tp5015401p5015402.html

Yes, you can check how many ROIs there are in the manager, get the area for each and find the largest are. The code below should hopefully do this.

if (roiManager("count")>1);{
        Area=newArray(roiManager("count"));
        for (i=0; i<roiManager("count");i++){
                roiManager("select", i);
                getStatistics(Area[i], mean, min, max, std, histogram);
        }
        AreaLarge = 0;
        for (i=0; i<(roiManager("count"));i++){
                if (Area[i]>AreaLarge){
                        AreaLarge=Area[i];
                        large = i;
                }
        }
}
roiManager("Select", large);


Best wishes

Kees


Dr Ir K.R. Straatman
Senior Experimental Officer
Advanced Imaging Facility
Centre for Core Biotechnology Services
University of Leicester
http://www2.le.ac.uk/colleges/medbiopsych/facilities-and-services/cbs/lite/aif


-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of burt46
Sent: 18 January 2016 00:46
To: [hidden email]
Subject: Select largest ROI from multiple

Hi,

I have a macro that runs a binary mask of a stack to generate ROIs within a polygon. Sometime when the macro runs, two or three ROIs are generated per slice rather than just one. Is there a way that you can force ImageJ to select only the largest ROI and ignore/delete the others. I need to extract one ROI per slice.

Many thanks  



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