Hi Craig. You can use the SD projection to get a nice representation of a cell images using PALM or STORM. Normally the number of blinking points gives you a saturated image but the SD (I use 2 SD's) gives a nice image.
Hi Bob, Thanks for dropping by. Of course I would never collect a saturated dataset :-) Good tip though. I'll try that out. Hope you're well. Cheers. C
Hi dear Craig, how are you? Hope you're doing well! Thanks for your video and the information you've shared. I'm interested in understanding how the spectrum process works. Could you provide some insights into how the colors in the spectrum are related to the data? Do you have any references or sources you could recommend on this topic?
Excellent video, how can I use imagej to measures crack width and opening and distance between cracks a renforced concrete beam? Please help me, thanks you
Hi Ayon, difficult to say without seeing your images. However, look at the process menu for the ‘smooth’ filters. Try the Gaussian Blur, mean and median smoothing filters. If your images are large you can select a small region as a test. Good luck. Craig.
Depends on the pattern but a circular diffraction pattern yields a very interesting circular FFT. Unfortunately I cant seem to post an image as a reply. Could your expand on your question a bit? Why do you ask?
When measuring a fourier transformed image versus an original image, would it be correct to say that the frequency data is easier to work with, but less precise? Is this a trade-off which should be considered when using this technique?
If you mean measuring the Inverse FFT (image) then I would argue that it offers greater precision as you have isolated a particular component of the image. However, selecting frequencies in the FFT is not very precise as you are only guided by the threshold tool. If, that’s what you are asking then yes, working with the FFT is easy but a bit of a ‘hit and miss’ when it comes to pulling out specific features. Thanks for watching.
Hi, Have you measured the orientation/ alignment of your fibers ? I have aligned fibers obtained by electrospining, i want to check how aligned they are. But i am not sure which plugin exactly to use and how to use it. I tried downloading the orientation j plugin of image j but a pop up says that it doesn't support the plugin. There's another plugin called directionality, i read that one could use that too. Incase you have used any of these or if you know some other method that could help measuring the alignment, it will be helpful. Thankyou
Hi, If you have an image of aligned fibres could you try simply drawing a straight at 90 degrees to the long axis across the image. Then check ‘plot profile’. This would shows peaks and troughs between the fibres and you could measure the regularity. Just a thought without seeing your images. Craig.
Hi, When you run the mouse over the FFT image the r and theta values are displayed for each pixel location. I'm not sure how you get these exported into a results table though. It's not something I have ever needed to do. Sorry.
![Denoising Data with FFT [Python]](/img/n.gif)
Great video, appreciated the explanations made this a lot easier to understand. Also love the Scottish accent!
Hi Craig. You can use the SD projection to get a nice representation of a cell images using PALM or STORM. Normally the number of blinking points gives you a saturated image but the SD (I use 2 SD's) gives a nice image.
Hi Bob, Thanks for dropping by. Of course I would never collect a saturated dataset :-) Good tip though. I'll try that out. Hope you're well. Cheers. C
Hi dear Craig, how are you? Hope you're doing well! Thanks for your video and the information you've shared. I'm interested in understanding how the spectrum process works. Could you provide some insights into how the colors in the spectrum are related to the data? Do you have any references or sources you could recommend on this topic?
Excellent video, how can I use imagej to measures crack width and opening and distance between cracks a renforced concrete beam? Please help me, thanks you
Hi, just to complete the loop; hopefully our email exchange has helped with your questions. Good luck. Craig.
Sir, can we use ImageJ to improve a noisy SEM image of bacteria? Your help would be extremely useful.
Hi Ayon, difficult to say without seeing your images. However, look at the process menu for the ‘smooth’ filters. Try the Gaussian Blur, mean and median smoothing filters. If your images are large you can select a small region as a test. Good luck. Craig.
@@CraigDaly Sir, I could send you a image sample. If you could kindly look into it. I will be grateful.
@@ayonpal Sure, find me at University of Glasgow and email your image. I don't want to leave an email address here.
@@CraigDaly Thank you very much Sir. I'll get back to you soon.
Hi Craig; i dont have FFT plugin where.can i download. Thankss
Greetins from Peru
Hi Jorge, it should already be available in both imageJ and Fiji. Look in the Process menu. Below ‘Math’ you should see ‘FFT’. C
What will a fast fourier transform of a diffraction pattern yield
Depends on the pattern but a circular diffraction pattern yields a very interesting circular FFT. Unfortunately I cant seem to post an image as a reply. Could your expand on your question a bit? Why do you ask?
When measuring a fourier transformed image versus an original image, would it be correct to say that the frequency data is easier to work with, but less precise? Is this a trade-off which should be considered when using this technique?
If you mean measuring the Inverse FFT (image) then I would argue that it offers greater precision as you have isolated a particular component of the image. However, selecting frequencies in the FFT is not very precise as you are only guided by the threshold tool. If, that’s what you are asking then yes, working with the FFT is easy but a bit of a ‘hit and miss’ when it comes to pulling out specific features. Thanks for watching.
Hi,
Have you measured the orientation/ alignment of your fibers ? I have aligned fibers obtained by electrospining, i want to check how aligned they are. But i am not sure which plugin exactly to use and how to use it. I tried downloading the orientation j plugin of image j but a pop up says that it doesn't support the plugin.
There's another plugin called directionality, i read that one could use that too. Incase you have used any of these or if you know some other method that could help measuring the alignment, it will be helpful.
Thankyou
Hi, If you have an image of aligned fibres could you try simply drawing a straight at 90 degrees to the long axis across the image. Then check ‘plot profile’. This would shows peaks and troughs between the fibres and you could measure the regularity. Just a thought without seeing your images. Craig.
Hi can you extract the r and theta values from the FFT image?
Hi, When you run the mouse over the FFT image the r and theta values are displayed for each pixel location. I'm not sure how you get these exported into a results table though. It's not something I have ever needed to do. Sorry.