spherical cut

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spherical cut

Krieger, Donald N.
Dear List,

I would like to visualize "spherical" cuts through an MR.
An axial cut is the intersection of the image volume with a plane normal to a line running superior to inferior through the volume.
A spherical cut is the intersection of a sphere with specified  origin through the volume.
Hence the visual would be a disc with radius that of the sphere and center at the origin.
There would be two such discs, one for the front and one for the back.

What do you think?
Is there an easy way?
Is it already in Fiji?

Thanks - Don

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Re: spherical cut

jerie
Dear Don,

this publication below contains free code to do radial representations of
volume data,   I am not sure though which software platform was used.

High-speed panoramic light-sheet microscopy reveals global endodermal cell
dynamics

Benjamin Schmid, Gopi Shah, Nico Scherf, Michael Weber, Konstantin
Thierbach, Citlali Pérez Campos, Ingo Roeder, Pia Aanstad & Jan Huisken
AffiliationsContributionsCorresponding author
Nature Communications 4, Article number: 2207 doi:10.1038/ncomms3207
Received 08 January 2013 Accepted 28 June 2013 Published 25 July 2013

Cheers,  jens
Visiting Scientist
Fundação Oswaldo Cruz - Ministério da Saúde, Centro de Desenvolvimento
Tecnológico em Saúde (CDTS), Rio de Janeiro
Am 28.12.2015 10:53 schrieb "Krieger, Donald N." <[hidden email]>:

> Dear List,
>
> I would like to visualize "spherical" cuts through an MR.
> An axial cut is the intersection of the image volume with a plane normal
> to a line running superior to inferior through the volume.
> A spherical cut is the intersection of a sphere with specified  origin
> through the volume.
> Hence the visual would be a disc with radius that of the sphere and center
> at the origin.
> There would be two such discs, one for the front and one for the back.
>
> What do you think?
> Is there an easy way?
> Is it already in Fiji?
>
> Thanks - Don
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html
Jens Rietdorf Visiting Scientist Fundação Oswaldo Cruz - Ministério da Saúde, Centro de Desenvolvimento Tecnológico em Saúde (CDTS), Rio de Janeiro, Brasil.
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Re: spherical cut

Krieger, Donald N.
Thank you, Jens.
I have fetched the jar's and installed it in Fiji which is the target routine.
I have written to the author and am making headway in understanding how to get the plugin to  function.
It's still not clear that it will be useful for my purposes so if anyone else has any thoughts, they would be most welcome.

Best - Don

> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of jens
> rietdorf
> Sent: Monday, December 28, 2015 12:36 PM
> To: [hidden email]
> Subject: Re: spherical cut
>
> Dear Don,
>
> this publication below contains free code to do radial representations of
> volume data,   I am not sure though which software platform was used.
>
> High-speed panoramic light-sheet microscopy reveals global endodermal cell
> dynamics
>
> Benjamin Schmid, Gopi Shah, Nico Scherf, Michael Weber, Konstantin
> Thierbach, Citlali Pérez Campos, Ingo Roeder, Pia Aanstad & Jan Huisken
> AffiliationsContributionsCorresponding author Nature Communications 4,
> Article number: 2207 doi:10.1038/ncomms3207 Received 08 January 2013
> Accepted 28 June 2013 Published 25 July 2013
>
> Cheers,  jens
> Visiting Scientist
> Fundação Oswaldo Cruz - Ministério da Saúde, Centro de Desenvolvimento
> Tecnológico em Saúde (CDTS), Rio de Janeiro Am 28.12.2015 10:53 schrieb
> "Krieger, Donald N." <[hidden email]>:
>
> > Dear List,
> >
> > I would like to visualize "spherical" cuts through an MR.
> > An axial cut is the intersection of the image volume with a plane
> > normal to a line running superior to inferior through the volume.
> > A spherical cut is the intersection of a sphere with specified  origin
> > through the volume.
> > Hence the visual would be a disc with radius that of the sphere and
> > center at the origin.
> > There would be two such discs, one for the front and one for the back.
> >
> > What do you think?
> > Is there an easy way?
> > Is it already in Fiji?
> >
> > Thanks - Don
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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