Re: How to perform 3D stitching with the new stitching plugin

Posted by ctrueden on Mar 24, 2015; 6:55pm
URL: http://imagej.273.s1.nabble.com/How-to-perform-3D-stitching-with-the-new-stitching-plugin-tp5012025p5012149.html

Hi Tom,

> I can only specify x and y ranges, but not z.

The Stitching plugins do try to adjust 3D stacks along Z so that things
align better, unless you follow the instructions on the wiki to disable
that [1].

If you are seeing otherwise, perhaps you could post a small dataset
illustrating the issue, together with a description of what happens, vs.
what you would like to happen.

Regards,
Curtis

[1] http://fiji.sc/Stitching#I_want_to_ignore_the_movement_of_tiles_in_Z

On Tue, Mar 17, 2015 at 6:00 PM, Tom Zhou <[hidden email]> wrote:

> Hi,
>
> I had a problem when trying to do 3D stitching with the grid/collection
> stitching plugin in Fiji. I can only specify x and y ranges, but not z. I
> noticed that there is an z option in the "deprecated" version of the
> plugin.
>
> Should I make a stack with tiles with same x and y positions, then stitch
> these stacks in order to do 3D stitching? How do I make sure that alignment
> is computed across the z-slices?
>
> Thank you for your help!!
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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