Re: Turbulent Jet Morphology?

Posted by KennethUdut on Jan 20, 2020; 10:47pm
URL: http://imagej.273.s1.nabble.com/Turbulent-Jet-Morphology-tp5022840p5022866.html

I'm new to this group but I've been using ImageJ (Fiji) on a recreational
basis for a couple of years as well as learning what I can about
mathematical morphology. Your animation is a great one and I couldn't help
but play around with it.

I happened to have a batch file I made a while back out of common-enough
image manipulation tools.  (Win7 machine)  which does an autotrace into
SVG, which I then took and made an animated GIF out of.

I know it's possible to do similar things in ImageJ and although I'm not
100% sure what you're looking for I know that getting a good segmentation
can be the trickiest part, based upon a good binary, on top of which other
determinations (measurements etc) rests.

convert -magnify %1 pgm: | mkbitmap -x -f 50 -t 0.48 | potrace -s -t 5 >
%1.svg

This is my windows batch file.  Programs are convert, mkbitmap and
potrace.  I don't remember where I got them all (convert is imagemagick,
that much I know) but I think they're common enough.

it produced this:
http://icopiedyou.com/wp-content/uploads/2020/01/turbs2.gif which I've done
in ImageJ before but there's always more than one way to do things. Don't
know if it's helpful or not but I enjoy trying things out. "Proof of
concept" more than "hard scientific" here.

Ken
[image: turbs2.gif]



On Mon, Jan 20, 2020 at 12:22 PM Herbie <[hidden email]> wrote:

> Dear Frank,
>
> attached (see the follwing link) please find an ImageJ-macro that does the
> proposed regional "Box Counting"-analyses for all images of a stack.
> fractalDim.ijm
> <http://imagej.1557.x6.nabble.com/file/t380516/fractalDim.ijm>
> (Perhaps you start with a single image, because the writing to the
> results-table takes a while...)
>
> Paste the macro code to an empty macro window (Plugins >> New >> Macro) and
> run it with either a single image or a stack open in ImageJ.
>
> Regional analyses are made for image selections that are 128pel wide.
> The increment is half the width, i.e. 64pel, which means an overlap.
>
> The filter parameters are not critical.
>
> The automatic "Otsu"-threshold scheme works quite well for the supplied
> image stack.
>
> The D-Column of the results table gives the fractal dimension as defined by
> "Box Counting"-approach. See "Examples" in:
> <https://en.wikipedia.org/wiki/Fractal_dimension>
>
> Please also see the ImageJ user guide sub-subsection "30.14.2 Fractal Box
> Count...":
> <https://imagej.nih.gov/ij/docs/guide/146-30.html#toc-Subsection-30.14>
>
> HTH
>
> Herbie
>
> :::::::::::::::::::::::::::::::::::::::::::
>
> Frank Shaffer wrote
> > Herbie,
> > The feature recognition only needs to work on one image. Then it can be
> > repeated for the other images.
> > If you find something that works, perhaps you can record it in a macro
> and
> > post it.
> > Thanks
> > Frank
> >
> > On Mon, Jan 20, 2020, 10:02 AM Herbie &lt;
>
> > l16@
>
> > &gt; wrote:
> >
> >> Dear Frank,
> >>
> >> initially you provided a single image and now you provide an image
> >> series.
> >> I'm totally unsure what you like to see in the end.
> >>
> >> With respect to the single image you wrote:
> >> "We would like to characterize the morphology (sizes, length scales,
> >> etc.)."
> >>
> >> Is this still what you want or what does the image sequence mean?
> >>
> >> If you like, I can provide the result of my initial idea which works for
> >> single images.
> >>
> >> BTW I've provided a link to the Wiki dealing with "Box Counting"-
> >>
> >> Regards
> >>
> >> Herbie
> >>
> >> :::::::::::::::::::::::::::::::::::::::::::
> >>
> >> Frank Shaffer wrote
> >> > I don't have experience with the fractal recognition technique.
> >> > If anyone would like to try their suggestions on an example video, you
> >> can
> >> > download it here:
> >> >
> >> > www.FDShaffer.net/Berkeley/Test_009_Fluorescent_enhanced.avi
> >> >
> >> > It's only 31 frames.
> >> >
> >> > If you technique works well, I will be happy to give you credit in our
> >> > publications.
> >> >
> >> > Thanks,
> >> > Frank Shaffer
> >> > FDShaffer.Net
> >> >
> >> > --
> >> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >>
> >>
> >>
> >>
> >>
> >> --
> >> Sent from: http://imagej.1557.x6.nabble.com/
> >>
> >> --
> >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >>
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
>
>
>
> --
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>
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>

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