Re: automatic skeletonisation

Posted by Ignacio Arganda-Carreras on Sep 05, 2014; 11:51am
URL: http://imagej.273.s1.nabble.com/automatic-skeletonisation-tp5009522p5009523.html

Dear Jean,

It's hard to say without looking at the images, but you can give a try to
some existing plugins:

http://fiji.sc/Skeletonize3D

http://fiji.sc/AnalyzeSkeleton

http://fiji.sc/Simple_Neurite_Tracer

Best,

ignacio



On Fri, Sep 5, 2014 at 12:57 PM, Jean Watermeyer <
[hidden email]> wrote:

> Hi there,
>
> I am looking for the best software to do automated segmentation of my
> electron tomographic data.  The data are quite noisy 3D volumes (cryo-EM)
> containing cellular material with filaments.  I want to generate a map of
> the path of the filaments and the connections between them in the most
> automated way possible.
>
> Is there an ImageJ plugin that might be able to do this?
>
> Thanks in advance,
> Jean
>
> --
> Dr. Jean Watermeyer
> Room 363 Malet Street Extension
> Dept. of Biological Sciences
> Birkbeck
> Malet Street
> London WC1E 7HX
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
Ignacio Arganda-Carreras, Ph.D.
Seung's lab, 46-5065
Department of Brain and Cognitive Sciences
Massachusetts Institute of Technology
43 Vassar St.
Cambridge, MA 02139
USA

Phone: [phone]
Website: http://bioweb.cnb.csic.es/~iarganda/index_EN.html

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