Re: Measure circumfence of cells (cannot use particle analyzer)

Posted by Gary Chinga on Sep 04, 2005; 2:09pm
URL: http://imagej.273.s1.nabble.com/Measure-circumfence-of-cells-cannot-use-particle-analyzer-tp3704929p3704930.html

You can try to measure the convex area and perimeter. This may be a  
good estimator of the "unbroken" membrane/cell area. The following  
method measures the convex area:

        float[][] findConvexArea(ResultsTable rt, ImageProcessor ipTemp){
                int nParticles = rt.getCounter();
                ResultsTable systemRT= ResultsTable.getResultsTable();
                float[][] cValues = new float[2][nParticles]; //Array for the area
and perimeter convex dimension for each particle
                ImagePlus impTemp = new ImagePlus("Test", ipTemp);
                WindowManager.setTempCurrentImage(impTemp);

                for (int i=0; i<nParticles;i++){
                    IJ.doWand((int)rt.getValue("XStart", i),(int)rt.getValue
("YStart", i));
                        IJ.run("Convex Hull");
                        IJ.run("Measure");
                        cValues[0][i] = (float)systemRT.getValue("Area", i);
                        cValues[1][i] = (float)systemRT.getValue("Perim.", i);
                }
                systemRT.reset();
                IJ.run("Select None");
                return cValues;
        }

or try the shape descriptor plugin: http://www.gcsca.net/IJ/Shapes.html


Gary.



On Sep 4, 2006, at 2:28 PM, Ulrik Stervbo wrote:

> Hi all,
>
> I been (quite unsuccessfully) looking for a way to identify the
> circumference of a cell. Does anyone know if there is a plugin for  
> ImageJ?
>
> The point is to end up with the area of the cell, but is it only the
> membrane of the cells which is stained, so the particle analyzer is  
> no good.
> Also, because of background and such, the line, indicating the edge  
> of the
> cell, may be broken (there is no guarantee that it is not broken).
>
> Thank in advance for any suggestions.
> Ulrik
>
>