Subject: Root - msg#00281

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Re: How to Get 1D Power Spectra from 2D FFT Image

Hi Dean, X-axis in wave vector units is of interest to me too, since I use Radial profile almost exclusively on power spectra calculated from HRTEM images. Please let me know how to do that. Thanks, Divakar --- Dean Waldow <waldow1@xxxxxxxxxxxx> wrote: > Hi, > > You can try the radial profile plugin as Divakar suggests. I > also > ended up rewriting the radial profile plugin so the x-axis is > wave > vector to compare with scattering data. If that is of > interest, let > me know. > > Dean Waldow > > > On Mar 27, 2006, at 7:07 PM, Ben wrote: > > > Dear All, > > Sorry for bothering. > > I had a 2D TEM image and I already used ImageJ to get a 2D > power > > spectra. (FFT transform on the TEM image). > > The problem is: I wan to average the radial intensity > > distribution of all the direction on the 2D power spectra to > get a > > 1D power spectra. That is to say, how to extract a 1D > magnitude of > > the 2D transform. So, I am wondering is there such a plugin > to > > average over the azimuthal angel to yield the radial power > spectra? > > Thanks a lot and your respons will be well appreciated! > > Regards > > Ben > > > > > > --------------------------------- > > Talk is cheap. Use Yahoo! Messenger to make PC-to-Phone > calls. > > Great rates starting at 1&cent;/min. > --------------------------------- Divakar@Yahoo --------------------------------- __________________________________________________________ Yahoo! India Matrimony: Find your partner now. Go to http://yahoo.shaadi.com

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LUT

Can I permanently add a LUT to the Image-Lookup tables menu? If not, how do I easily apply a LUT, that's not in the menu, to all my open images? Bo

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getting numbers out of gel lane plots

Dear ImageJ experts - Does anyone know how to export the numbers behind the plots ImageJ produces from the PLOT LANES gel command? Some context: I'm trying to use ImageJ to process still images as part of a video camera-based spectrometer. The camera looks at the light dispersed by a compact disc (i.e., the rainbow for white light). From these images I use the PLOT LANES feature in ImageJ to produce plots of light intensity vs. position on the CD. This works well for getting quick spectra, but I'd really like to get a list of the numbers that ImageJ uses to make these plots for subsequent processing - to produce an absorption spectrum, for example, or for superposing / scaling several different spectra. The TOOLS/SAVE X-Y COORDINATES function produces a list of the pixel coordinates and their 8-bit intensities (pretty much 0 or 255 since it's a line drawing). I could process this list to get what I want, but this seems crazy since ImageJ must have already calculated these numbers to make the plots in the first place. Is there a way? Thanks! Stu -- ************************************************* Stuart M. Anderson Associate Professor of Physics Augsburg College 2211 Riverside Avenue Minneapolis, MN 55454 Tel: (612) 330-1012 Internet: anderstu@xxxxxxxxxxxx **************************** "Saxophones are holey relics." ****************************

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Re: Root

> Do you know if I can use ImageJ to analyse plant root systems > morphology (Area, volume and diameter). This should be entirely possible, but its complexity will depend on the images you have for input, and the details of what you want to accomplish. You may wish to open an image (or some images) and take a look at: Image>Type>8-bit Image>Threshold Analyze>Set Scale Analyze>Set Measure Analyze>Measure If and when you get the right kind of things look at: Plugins>Macro>Record To do volumes you will need some serial slices through the root system. You will likely build these into z-axis stack by opening them all and then doing Images>Stacks>convert images to stacks. As you can see there will be considerable complexity, and you may need to extend ImageJ to take care of specific needs related to your project. If you are lucky you will find a plugin someone else has already written at http://rsb.info.nih.gov/ij/plugins/index.html, but as likely as not, you will end up writing a macro or plugin to make you task do-able, or at least more seamless. HTH, Rob