Posted by
Aryeh Weiss on
Aug 23, 2016; 7:05am
URL: http://imagej.273.s1.nabble.com/Using-ImageJ-for-bacteriophage-plaques-tp5017097p5017101.html
On 22/08/2016 10:55 PM, Tamara James wrote:
> I have a question regarding an auto detection or manual selection of
> detected circles (bacteriophage Plaques)- I have attached the images here
> and any help would be terrific.
>
>
http://forum.imagej.net/t/image-analysis-for-bacteriophage-plaques/2549?u=tamarajame>
>
Try the following macro with your image open:
inputTitle = getTitle();
run("8-bit");
run("Duplicate...", " ");
rename("bg");
bgTitle = getTitle();
run("Gaussian Blur...", "sigma=50");
imageCalculator("Subtract create", bgTitle, inputTitle);
resultTitle = getTitle();
run("Enhance Contrast", "saturated=0.35");
setAutoThreshold("Default dark");
run("Analyze Particles...", "size=100-Infinity show=Masks display
exclude clear summarize add");
maskTitle = getTitle();
run("Grays");
selectWindow(inputTitle);
roiManager("Show All without labels");
You may need to do some tweaking, but this should get you started.
Let me know if you have trouble running this.
--aryeh
--
Aryeh Weiss
Faculty of Engineering
Bar Ilan University
Ramat Gan 52900 Israel
Ph: 972-3-5317638
FAX: 972-3-7384051
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