Posted by
Ofra Golani on
Sep 30, 2015; 9:00pm
URL: http://imagej.273.s1.nabble.com/Local-Thickness-for-anisotropic-voxels-tp5014494p5014507.html
Thanks Thomas,
Making my stack isotropic is a good idea.
However, I have image with voxel size 0.08*0.08*0.24 um, shouldn't I use TransformJ scale instead of Reslice
I think the best would be to get image with 3 times the number of slices and voxel size 0.08*0.08*0.08.
Thanks
Ofra
-----Original Message-----
From: Thomas Boudier [mailto:
[hidden email]]
Sent: Wednesday, September 30, 2015 4:00 AM
Subject: Re: Local Thickness for anisotropic voxels
Dear Ofra,
I do not think there is a plugin for local thickness for anisotropic voxels. I can suggest you to have a look to 3D distance map that may give you the information you want, or simply make your image anisotropic :
getVoxelSize(width, height, depth, unit); run("Reslice [/]...", "output=&width start=Top"); run("Reslice [/]...", "output=&width start=Top");
Best,
Thomas
On 30/09/2015 06:44, Ofra Golani wrote:
> Hi,
>
> Does the Local Thickness plugin assume isotropic voxels (voxel size is equal in all directions) ?
> Is there any plugin available for calculating 3D local thickness for anisotropic voxels ?
>
> Thanks
>
> Ofra
>
>
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> /***************************************************************/
> Thomas Boudier, Associate Professor, UPMC,
> Université Pierre et Marie Curie, Paris, France.
> BioInformatics Institute (BII)/IPAL, Singapore.
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