Re: unrolling a z-stack

Posted by Julian Cooper on Oct 15, 2009; 6:47pm
URL: http://imagej.273.s1.nabble.com/unrolling-a-z-stack-tp3690733p3690734.html

Hi Elizabeth,

If I understand your problem correctly you can achieve this with the Radial
Reslice plugin:

http://rsb.info.nih.gov/ij/plugins/radial-reslice/index.html

Start with a line selection with the initial end on the centre of the cell
and use the plugin to rotate 360° about that end. This will give you a stack
of slices of the cell rotated about the centre. If you reslice
(Image>Stacks>Reslice or press '/') this resulting stack from the right or
left the peripheral fibres should be displayed in the stack as you require.
I use this technique to "unroll" cylindrical bones to visualise the pattern
of a fracture or non-union.

I hope this helps.

Kind regards,

Julian

> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On
> Behalf Of Elizabeth Crowell
> Sent: 15 October 2009 16:26
> To: [hidden email]
> Subject: unrolling a z-stack
>
>
> Dear ImageJ experts,
>
> I am taking images of fibers that occur on the periphery of
> cells, and acquiring
> z-stacks of the entire cell.  The cells are roughly cylindrical.
> For visualization purposes, it would be useful to virtually
> slice open these
> cells and unroll them so that I can see the fibers on every
> face of the
> cylinder in the same plane.
> Is there a means of doing this?  Has anyone encountered this
> issue before?
>
> Segmentation of the cells should not be a problem, since I
> can simply delete the
> signal outside of the cells in each slice.  (This does not
> need to be a
> high-through-put procedure.)
>
> Thank you in advance for your ideas...
>
> Sincerely,
>
> Elizabeth Crowell
> Laboratoire de Biologie Cellulaire
> INRA / Institut Jean-Pierre Bourgin
> Route de Saint-Cyr
> 78026 Versailles cedex
> FRANCE
>
> Tel: [phone]
> Fax: [phone]
>