thanks it works now :) On 04/12/2012 12:48 PM, Douglas N Greve wrote:
Take the inverse
On 04/12/2012 01:47 PM, Johnson wrote:
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 mailto:jgadel2@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.edumailto:Freesurfer@nmr.mgh.harvard.edu >>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edumailto: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.edumailto:jgadel2@uic.edu >>> >>> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >
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