Hi Johanna, I don't understand much about the subject and much less about ImageJ software, so I would like to know if this tutorial would help me to count stomata in chili plants automatically? Thank you.
Hi @Miguel Martinez. It’s not exactly automatic. You will need to do some pre-processing and segmentation, but after that, you can get a count. It really depends on what your image looks like. If you want, you could send me an email with your image, so that I could check out how the stomata in your image can be segmented.
Hi Johanna I added a scale bar by our lab Zeiss program. It was 200 um. When I tried to scale the diameter of my cell nucleus, I got a diameter of 200 to 300 um. As we know the average nucleus diameter is 5-10 um. What do you suggest please? Of note, my images were taken by 20X object.
I used the following commands, Add a scale bar, burn in annotation. Excuse me, I did not understand what you mean by Metadata but I tried to reply to clear what I did
@@mohammadkhashan7425 when you open the image, does the heading show the scale in pixels or microns? Or, if you go to Image-Properties, do you see the x,y,z scales in pixels or microns?
@@mohammadkhashan7425 You have to set the scale correctly, not just change the unit. Watch this video on scaling: FIJI (ImageJ): Scaling & Spatial Calibration ruclips.net/video/MCasWMg8z5E/видео.html
Hi Johanna, I don't understand much about the subject and much less about ImageJ software, so I would like to know if this tutorial would help me to count stomata in chili plants automatically? Thank you.
Hi @Miguel Martinez. It’s not exactly automatic. You will need to do some pre-processing and segmentation, but after that, you can get a count. It really depends on what your image looks like. If you want, you could send me an email with your image, so that I could check out how the stomata in your image can be segmented.
Hi Johanna
I added a scale bar by our lab Zeiss program. It was 200 um. When I tried to scale the diameter of my cell nucleus, I got a diameter of 200 to 300 um. As we know the average nucleus diameter is 5-10 um. What do you suggest please? Of note, my images were taken by 20X object.
Hi @Mohammad. How did you get the 200 um scaling? Is it included in the metadata of your image?
I used the following commands,
Add a scale bar, burn in annotation.
Excuse me, I did not understand what you mean by Metadata but I tried to reply to clear what I did
@@mohammadkhashan7425 when you open the image, does the heading show the scale in pixels or microns? Or, if you go to Image-Properties, do you see the x,y,z scales in pixels or microns?
It shows them in pixel. But after adjusting the scale measurements into micro the scale changes.
@@mohammadkhashan7425 You have to set the scale correctly, not just change the unit. Watch this video on scaling: FIJI (ImageJ): Scaling & Spatial Calibration
ruclips.net/video/MCasWMg8z5E/видео.html