Automated Cell Counting in ImageJ
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- เผยแพร่เมื่อ 14 เม.ย. 2011
- A quick tutorial on using ImageJ to count cells automatically.
This video was inspired by Anna McLean's 2011 Academic Excellence Conference presentation: • Anna McLean at KSC 201...
Created by Keene State College's Center for Engagement, Learning, and Teaching
ImageJ Download:
imagej.nih.gov/ij/download.html
Automated Nuclei Counter:
www.bioimage.ucsb.edu/download...
The University of Chicago has a great resource that explains how to larger objects, and measure diameter and area at the same time:
digital.bsd.uchicago.edu/resou...
Nice and easy to follow. Great job!
I don't have a copy of the ITCN on my computer to pass along. One of the things that's important to keep in mind is that ImageJ comes in two varieties - 32 bit and 64 bit. Compatibility issues may well be related to the version of ImageJ running. My 1st step would be to investigate that. If that looked like it was working properly, I would consider using the counting feature that's built into ImageJ rather than the plug-in. It takes a little more calibration, but also works well to count cells.
is there a plugin or a youtube video that describes how to delineate various fluorescent labeled cells and quantify how many of each labeled cells there? For example, if I stain cells with 324nm, 488nm and 555nm, is there a plugin that i can use to accurate quantify the number of cells for each wavelength. thanx,
Hi celtkeene, I was wondering what kind of stain do you use and the protocol that you use. Is that anywhere on the web and if not would you be willing to share the information with me. I do some staining with bisbenzimide and I am looking for something a bit better. Thanks.
@Manim3 if you've still got a color image (or 8-bit color) you might not be getting the results you'd like. Make sure that you've converted the image to only 8-bit. If that doesn't do the trick, check your settings for the ITCN plug-in. If you're still stuck, check @qcthegreat's channel
is there any way to count something if its not fluorescing? i need to count circles and everytime i try to use this it wont threshold (highlight) just my circles. i need to figure out how to measure the diameter or area of each of these circles. any suggestions?
Hi celtkeene.
Thanks a lot for your video! I installed the ITCN plugin however the options shown once I try to use it are not the same as in your video. To define width and distance I can only insert by typing and not by drwaing any line; I do not have the option to set the threshold which in the end leads to couting things that are not nuclei in the picture. Do you know why this is? I am using the latest version of ImageJ for a windows 7, 64 bit. Can this be the cause? Cheers.
Anna McLean's 2011 Academic Excellence Conference presentation inspire this ImageJ tutorial. I added the video link to the description above.
hi, i tried this but it just keeps giving me zero for the cell count... any idea what i need to do?
thanks a lot for this!
I don't know if there's a way to track color values in ImageJ... it shouldn't be too difficult, I'm just not sure how to do that. I can think of a couple of kludgy ways to get the same result, but 8mmss might be better off doing some googling rather than using my hack solution.
-Matt
The University of Chicago has a great resource that might solve your problem... it should help you count circles, and measure diameter and area - look up in the description for this video, I added the link there. I hope that helps!