AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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NL
November 23, 2004 10:23AM
Hello all you AFNI experts

I need to work on some images that are oblique coronals. I have been given the co-ordinates for the centers of the first and last slice of the volume. So I have P 35.1, A 35.5, I 11.7 and S 2.4, R and L being 0.0. I also know the angle which is 169 degrees ( the superior part of the coronal slices are tilted more anterior than the rest of the slice) . There have been 25 slices which are 3 mm thick. How do I reconstruct the images?

The command line that I used was
to3d -anat -prefix Proton_Density_TE2 -session Results -2swap -view orig -xFOV 120L-120R -yFOV 117.6S-131.7I -zSLAB 35.1P-35.5A '3D:0:8432:256:256:1:Proton-Density_TE2/I*'

But this is incorrect as 35.1+35.5 =70.6 and not 75 (which is 25*3). besides the values for S and I too are not correct as I just added and subtracted from 120. The images that I got out of this are perfect T2 weighted images but they are wrong considering that the volume either has been squeezed or stretched to account for the errors I made. I am now thinking 3drotate, the nudge plugin but I dont really know. Please do help me out.

Thanks

NL

Subject Author Posted

reconstruction of oblique coronals

NL November 23, 2004 10:23AM

Re: reconstruction of oblique coronals

teodora November 23, 2004 01:42PM

Re: reconstruction of oblique coronals

NL November 23, 2004 03:26PM

Re: reconstruction of oblique coronals

Wolfgang November 25, 2004 11:48AM

Re: reconstruction of oblique coronals

NL November 30, 2004 05:17PM

Re: reconstruction of oblique coronals

Rich Hammett November 23, 2004 04:21PM