run("Embryos (42K)"); run("Make Composite"); id = getImageID; roiManager("reset"); setBatchMode(true); run("Duplicate...", "title=mask"); // red channel has best contrast run("Convert to Mask"); run("Dilate"); run("Erode"); run("Fill Holes"); run("Watershed"); run("Set Measurements...", "area mean circularity slice decimal=3"); setThreshold(255, 255); run("Analyze Particles...", "size=250 circularity=0.4 exclude clear add"); selectImage(id); for (c=1; c<=3; c++) { Stack.setChannel(c); roiManager("Measure"); } setOption("Show All",true);