multi-point selections - how do I save slice location?

[Vanessa Punal]

Hi ImageJ Community,
I have been using the multi-point tool in order to label the X and Y locations of ROI within a 2D image. However, I am now in need of also labeling the Z location of my ROI (I am analyzing confocal z-stacks).  Does the multi-point tool have a function which stores what slice a particular selection is located within? If not, what else in ImageJ can I use to do this? Any help is appreciated!
Best,
Vanessa Punal

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[Peter Mc]

Hi Vanessa;

I know that kind of problem, for me the easiest way to solve was using the ROisManager's function:
 int getSliceNumber(java.lang.String label)
Anyway there is not tool for multi-point ROI or just ROI classes or at least I have not idea so you have too look for the way to get the slice where your points are placed.

Regards.

[Vanessa Punal-2]

Ok, thank you.
________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Peter Mc [[hidden email]]
Sent: Tuesday, September 10, 2013 5:22 PM
To: [hidden email]
Subject: Re: multi-point selections - how do I save slice location?

Hi Vanessa;

I know that kind of problem, for me the easiest way to solve was using the
ROisManager's function:
 int getSliceNumber(java.lang.String label)
Anyway there is not tool for multi-point ROI or just ROI classes or at least
I have not idea so you have too look for the way to get the slice where your
points are placed.

Regards.



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[Rasband, Wayne (NIH/NIMH) [E]]

On Sep 10, 2013, at 11:43 AM, Vanessa Punal wrote:

> Hi ImageJ Community,
> I have been using the multi-point tool in order to label the X and Y locations of ROI within a 2D image. However, I am now in need of also labeling the Z location of my ROI (I am analyzing confocal z-stacks).  Does the multi-point tool have a function which stores what slice a particular selection is located within? If not, what else in ImageJ can I use to do this? Any help is appreciated!

Use the (single) point tool to mark x,y,z locations and add them to the ROI Manager by typing "t" (Edit>Selection>Add to Manager). Use the ROI Manager's "Measure" command to list the x,y,z locations. Disable  "Assocate 'Show All' ROIs with slices" in More>>Options to display all the points instead of only the points on the current slice.

-wayne

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