I do the transformation in Matlab, I found out that the matlab *load_mgh* function returns the vox2ras matrix, where can I find the ras2vox matrix?
On 04/12/2012 12:11 PM, Bruce Fischl wrote:
yes On Thu, 12 Apr 2012, Johnson wrote:
The vector coordinates will be in the voxel space
On 04/12/2012 11:54 AM, Bruce Fischl wrote:
Hi Johnson
it depends whether you are using the ras2vox or vox2ras. It should be:
V_rawavg = M_ras2vox_rawavg * inv(M_ras2vox_aseg) * V_aseg
Where the V_* are 4x1 homogenous vectors.
cheers Bruce
On Thu, 12 Apr 2012, Johnson wrote:
so to be clear about it, suppose T1 is the matrix in aseg and T2 is the one in rawavg, to transform from aseg to rawavg I will apply invert(T1)*T2 is that correct?
On 4/11/2012 8:12 PM, Bruce Fischl wrote:
Invert one and compose it with the other
On Apr 11, 2012, at 7:48 PM, Johnsonjgadel2@uic.edu wrote:
> there are two transformation matrices one in aseg and one in rawavg, > how > do I use them ? > > On 04/11/2012 6:12 PM, Bruce Fischl wrote: >> yes >> On Wed, 11 Apr 2012, Johnson wrote: >> >>> great, so if I can read the header from the aseg file and the header >>> from the >>> rawavg header file I would be able to transfer any point from the >>> aseg >>> space >>> to the rawavg space is that correct ? >>> >>> On 04/11/2012 4:40 PM, Bruce Fischl wrote: >>>> it registers them based on the header information, but since the >>>> aseg >>>> is >>>> derived from the rawavg that should be exactly correct >>>> >>>> >>>> On Wed, 11 Apr 2012, Johnson wrote: >>>> >>>>> And it exactly does that, does it register them together or use a >>>>> pre-known >>>>> transformation matrix >>>>> On 04/11/2012 3:46 PM, Bruce Fischl wrote: >>>>>> Hi Johnson >>>>>> >>>>>> I believe it resamples the aseg to have the same geometry as the >>>>>> original >>>>>> scan. >>>>>> >>>>>> cheers >>>>>> Bruce >>>>>> On Wed, 11 Apr 2012, Johnson wrote: >>>>>> >>>>>>> Hi >>>>>>> Can someone tell me please in details what does this line do? >>>>>>> mri_label2vol --seg aseg.mgz --temp rawavg.mgz --o >>>>>>> aseg-in-rawavg.mgz >>>>>>> --reg >>>>>>> header aseg.mgz >>>>>>> thanks >>>>>>> >>>>>>> >>>>>> The information in this e-mail is intended only for the person to >>>>>> whom it >>>>>> is >>>>>> addressed. If you believe this e-mail was sent to you in error and >>>>>> the >>>>>> e-mail >>>>>> contains patient information, please contact the Partners >>>>>> Compliance >>>>>> HelpLine at >>>>>> http://www.partners.org/complianceline . If the e-mail was sent to >>>>>> you in >>>>>> error >>>>>> but does not contain patient information, please contact the >>>>>> sender >>>>>> and >>>>>> properly >>>>>> dispose of the e-mail. >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > -- > Johnson J. GadElkarim > Research Assistant, Department Of Psychiatry, > PhD Candidate, Department Of Electrical& Computer Eng., > University Of Illinois at Chicago > Mob: 312 - 376 - 7322 > Email: jgadel2@uic.edu > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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