yoking cursor across different planes of section

[Dianne Patterson]

Dear Group,

Yesterday, I wrote to the group asking if anyone had drawn ROIs that updated
in all three planes of section for a volume.
Sadly, no one has come forward with a super plugin...so now I have a more
modest question:
Can I view 3 planes of section for a volume and  yoke the cursor?  Right
now, I do not get accurate coordinates for any volume which I have
rotated...that is, my original x,y, and z are not kept  and x simply
corresponds to across the screen, y up and down and z through the slices...

Thanks again,

Dianne

--
Dianne Patterson, Ph.D.
[hidden email]
Cognition and NeuroImaging labs
University of Arizona
626-4571 (Office)

[Wayne Rasband]

> Yesterday, I wrote to the group asking if anyone had drawn
> ROIs that updated in all three planes of section for a volume.
> Sadly, no one has come forward with a super plugin...so now
> I have a more modest question:
> Can I view 3 planes of section for a volume and  yoke the
> cursor?  Right now, I do not get accurate coordinates for any
> volume which I have rotated...that is, my original x,y, and z
> are not kept  and x simply corresponds to across the screen,
> y up and down and z through the slices...

None of the three orthogonal view plugins I know of display accurate  
x,y,z coordinates. You might want to write the respective authors and  
request this feature.

   http://www.med.harvard.edu/JPNM/ij/plugins/Display3TP.html
   http://rsb.info.nih.gov/ij/plugins/volume-viewer.html
   http://www.disi.unige.it/person/BerteroM/MedNuc/OrtView/OrtView.html

-wayne

[Zimmerman, Robert Edward,M.S.]

I have longed for a 3D ROI tool for years, to no avail.

Measure Stack plugin sort of does it, but I do not have a lot of experience with
it.  You draw ROIs on slices in a stack and it interpolates between them to get
a volume count.

Also the Multi Measure plugin expands the ROI manager to aid in drawing a series
of ROI in a stack to sort of get 3D ROIs.

Neither shows the object in 3D, just working with a stack.

Bob Z

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Dianne
Patterson
Sent: Saturday, February 18, 2006 3:06 PM
To: [hidden email]
Subject: yoking cursor across different planes of section

Dear Group,

Yesterday, I wrote to the group asking if anyone had drawn ROIs that updated
in all three planes of section for a volume.
Sadly, no one has come forward with a super plugin...so now I have a more
modest question:
Can I view 3 planes of section for a volume and  yoke the cursor?  Right
now, I do not get accurate coordinates for any volume which I have
rotated...that is, my original x,y, and z are not kept  and x simply
corresponds to across the screen, y up and down and z through the slices...

Thanks again,

Dianne

--
Dianne Patterson, Ph.D.
[hidden email]
Cognition and NeuroImaging labs
University of Arizona
626-4571 (Office)

[Dianne Patterson]

I will check out the tools R. Zimmerman pointed out!  Thanks for the
suggestion.
ImageJ is so flexible and open...I wish I could do more than write matlab
scripts and shell scripts : (

I'll just keep poking around in your wonderful program....it does SO much.

Dianne


On 2/21/06, Zimmerman, Robert Edward,M.S. <[hidden email]> wrote:

>
>
> I have longed for a 3D ROI tool for years, to no avail.
>
> Measure Stack plugin sort of does it, but I do not have a lot of
> experience with
> it.  You draw ROIs on slices in a stack and it interpolates between them
> to get
> a volume count.
>
> Also the Multi Measure plugin expands the ROI manager to aid in drawing a
> series
> of ROI in a stack to sort of get 3D ROIs.
>
> Neither shows the object in 3D, just working with a stack.
>
> Bob Z
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of
> Dianne
> Patterson
> Sent: Saturday, February 18, 2006 3:06 PM
> To: [hidden email]
> Subject: yoking cursor across different planes of section
>
> Dear Group,
>
> Yesterday, I wrote to the group asking if anyone had drawn ROIs that
> updated
> in all three planes of section for a volume.
> Sadly, no one has come forward with a super plugin...so now I have a more
> modest question:
> Can I view 3 planes of section for a volume and  yoke the cursor?  Right
> now, I do not get accurate coordinates for any volume which I have
> rotated...that is, my original x,y, and z are not kept  and x simply
> corresponds to across the screen, y up and down and z through the
> slices...
>
> Thanks again,
>
> Dianne
>
> --
> Dianne Patterson, Ph.D.
> [hidden email]
> Cognition and NeuroImaging labs
> University of Arizona
> 626-4571 (Office)
>

--
Dianne Patterson, Ph.D.
[hidden email]
Cognition and NeuroImaging labs
University of Arizona
626-4571 (Office)