Re: Analysing x-z and y-z slices
Posted by
Julio Vazquez on
URL: http://confocal-microscopy-list.275.s1.nabble.com/Analysing-x-z-and-y-z-slices-tp591684p591687.html
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
-
Hi Graham,
The imagej plugin "Reslice Plus" will convert an xyz stack into an xzy or yzx stack (that is, rotate the stack). you can then analyze the xz or yz sections as you normally would. I believe the Zeiss LSM Macro "Modify Images" might be able to do the same, but I cant be sure just from memory.
--
Julio Vazquez
Fred Hutchinson Cancer Research Center
Seattle, WA 98109-1024
=
On Jan 28, 2008, at 7:14 PM, Graham Wright wrote:
Search the CONFOCAL archive at http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocalHello,
I have a Z-stack acquired on a Zeiss LSM 510 META confocal of a sample in 2 channels (single time point). I would like to be able to extract the x-z and y-z slices so that I can analyse the fluorescence intensity across them.
I have Imaris and ImageJ at my disposal. In Imaris I can get a view of these slices quite nicely and adjust the 'depth' and position of them using the Ortho Slicer and Oblique Slicer options. However I don't know how, if it is possible, to extract just these slices as images, which I can later analyse. Can anyone help. Or, does anyone know how to do it in ImageJ, or indeed another programme?
Alternatively is there a way to directly analyse a x-z or y-z frame across a 3D reconstruction, for fluorescence intensity, in any programme?
Thanks in advance for your help,
Graham
-----
Graham Wright
Microscopy & Imaging Facility
Temasek Life Sciences Laboratory
1 Research Link
National University of Singapore
Singapore 117604