Re: ROI question

Posted by Michal Lijowski-2 on
URL: http://imagej.273.s1.nabble.com/Get-windows-titles-tp3700495p3700501.html

I acquired results by drawing ROIs, adding them to ROI Manager,
measuring ROI,  and after I acquired all ROIs for all images in the
stack I saved them without paying attention to the coordinates
in the ROI name and their relation to the ROI coordinates.

I can open the ROI set with ROI Manager but somehow the relation between
coordinates of saved ROI and the coordinates of the actual image got
messed up. The images are 416.13 mm by 416.13 mm. But the coordinates in
the  name of the first ROI are 0536-0428 and the ROI coordinates from
the results table are x 198.718 and y 248.278 with corresponding width
and height 10.217 and 15.79.

So, using the current version of ImageJ  ROIs acquired 14 months ago are
outside the images.

Michal



On Thu, 2007-01-25 at 09:45 -0500, Josh D wrote:

> How do you wish to redraw the ROIs? Why not just load the ROI? Or
> define the ROI by points you have saved?
>
> I think you need to clarify your question a bit more. Are you using a
> plugin or a macro? What data do you have to redraw/restore the ROIs?
> -Josh D
>
> On 1/24/07, Michal Lijowski <[hidden email]> wrote:
> > How  X and Y coordinates in the ROI name are related to coordinates
> > in results table?
> >
> > Here is an example.
> > This is a list of ROIs.
> >   Length     Date   Time    Name
> > --------    ----   ----    ----
> >       500  10-28-05 14:56   0001-0536-0428.roi
> >       384  10-28-05 14:56   0002-0530-0431.roi
> >       368  10-28-05 14:56   0003-0537-0433.roi
> >       388  10-28-05 14:56   0004-0535-0437.roi
> >       416  10-28-05 14:56   0005-0533-0430.roi
> >       424  10-28-05 14:56   0006-0533-0431.roi
> >       372  10-28-05 14:56   0007-0533-0428.roi
> >       584  10-28-05 14:56   0008-0535-0438.roi
> >
> > This is data from results table derived using above ROIs.
> >         Area    Mean     X       Y       BX      BY      Width
> > Height
> > 1       124.672 160.187  198.718 248.278 193.668 241.039 10.217
> > 15.791
> > 2       69.454  161.425  200.470 246.157 195.061 241.504 10.217
> > 9.289
> > 3       63.846  167.740  201.033 249.810 197.383 244.290 7.431
> > 10.682
> > 4       64.493  163.669  203.218 248.640 200.170 241.968 6.038
> > 13.004
> > 5       76.572  144.614  199.858 248.307 195.990 241.039 7.895
> > 13.468
> > 6       74.846  148.274  200.196 247.146 195.525 241.039 9.753
> > 13.004
> > 7       56.081  149.385  198.401 248.713 195.525 241.968 6.502
> > 11.611
> > 8       125.751 146.027  203.738 247.897 195.990 241.039 15.326  14.862
> >
> >
> > The ROIs were drawn and results were obtained using ImageJ version
> > available in October 2005. From the current ImageJ online source code I
> > figured out that X and Y coordinates are derived from the coordinates of
> > the bounds of the rectangle surrounding ROI and its width and height.
> >
> > The ROIs were drawn on 16 bit 128x128  grayscale DICOM images, scaled by
> > a factor of 3 and with magnifying glass tool focused on the specific
> > part of the image.
> >
> > My intention is to draw the ROIs again on the same images.
> >
> > I appreciate any hints.
> >
> > Michal
> >