RE: Measuring Angles between adjacent particles

Posted by DarthRevan109 on
URL: http://imagej.273.s1.nabble.com/Measuring-Angles-between-adjacent-particles-tp5018001p5018022.html

Thank you all for the suggestions, I have started using the CurveAlignTool. My structures are "fibrillar" in a sense, they are the Z-discs of sarcomeres. Here I've attached a typical image. I would like to measure the angles between adjacent structures.

Fortunately, as biological data goes this is a fairly easy structure to mask.

Aidan Fenix, B.S.

Graduate Student

Vanderbilt University

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From: ctrueden [via ImageJ] [ml-node+[hidden email]]
Sent: Thursday, February 02, 2017 4:52 PM
To: Fenix, Aidan Mandy
Subject: Re: Measuring Angles between adjacent particles

Hi Aidan,

On Thu, Feb 2, 2017 at 11:32 AM, DarthRevan109 <[hidden email]
> wrote:

> There are available and useful plugins such as Directionality to measure
> the
> orientation of particle across an entire image. Does anyone have a plugin
> they suggest that can measure the angle between adjacent particles, and
> preferably display the data with a histogram and image of the original
> image
> with numbered particles? It would be like an orientation of a nearest
> neighbor.
>

If your particles are fiber-like, such as collagen, you might find this
CurveAlign tool interesting:

  http://loci.wisc.edu/software/curvealign

It is from my group, although I am not the one responsible for developing
it.

On Thu, Feb 2, 2017 at 11:48 AM, Herbie <[hidden email]> wrote:

> Evidently this is a cross-post from the forum.


It is a good idea to post the link to the other half of the conversation,
so that everyone can follow it more easily. In this case, that is:

http://forum.imagej.net/t/measuring-angles-between-adjacent-objects/3975

On Thu, Feb 2, 2017 at 11:48 AM, Herbie <[hidden email]> wrote:

> A _typical_ image may help.
>

I agree: if you can post a sample image, that is very helpful for us to
make more targeted suggestions.

Regards,
Curtis

--
Curtis Rueden
LOCI software architect - https://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
Did you know ImageJ has a forum? http://forum.imagej.net/


On Thu, Feb 2, 2017 at 12:43 PM, DarthRevan109 <[hidden email]
> wrote:

> Hi Herbie,
>
> Thanks for the response, that's the answer I expected but feared. Thanks
> as well for your suggestions I will keep them in mind.
>
> Cheers,
>
>
>
> Sent from my iPhone
>
> On Feb 2, 2017, at 11:52 AM, Herbie [via ImageJ] <
> [hidden email]<mailto:ml-node+
> [hidden email]>> wrote:
>
> Good day!
>
> Evidently this is a cross-post from the forum.
>
> I'm pretty sure that no such ImageJ-code exists yet.
>
> When thinking about writing such code, a fundamental question concerns
> the typical number of particles in an image and their properties (e.g.
> are they strictly oriented?).
>
> A _typical_ image may help.
>
> Best
>
> Herbie
>
> :::::::::::::::::::::::::::::::::::::::::::
> Am 02.02.17 um 18:32 schrieb DarthRevan109:
> > There are available and useful plugins such as Directionality to measure
> the
> > orientation of particle across an entire image. Does anyone have a plugin
> > they suggest that can measure the angle between adjacent particles, and
> > preferably display the data with a histogram and image of the original
> image
> > with numbered particles? It would be like an orientation of a nearest
> > neighbor.
> >
> > Thanks!
>
> --
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