If a structural image has been coregistered, and Check Reg shows the images to
be in alignment, then you can simply reslice the images. You can't copy
matrix information between structural and functional images though because
they are usually completely different voxel sizes etc.
Best regards,
-John
On Thursday 13 November 2008 16:50, Alessio Tallarita wrote:
> Thanks for you help.
> But I have another question: how I can apply the transformation to the
> structural image (coregister to the first functional) ?
> In the same way ?
>
>
> ----- Original Message -----
> From: "John Ashburner" <[log in to unmask]>
> To: "Alessio Tallarita" <[log in to unmask]>; <[log in to unmask]>
> Sent: Thursday, November 13, 2008 1:14 PM
> Subject: Re: [SPM] Resample with parameter contained in rp_1.txt
>
> > The contents of the rp_*.txt file is also encoded in the image headers
> > (or .mat files) after realignment. Maybe you could copy this matrix
> > information
> > from one image (an image that was included in the realignment) to another
> > (the one derived from the image that was included in the realignment).
> >
> > The command for reading a matrix is
> >
> > M = spm_get_space('imagename')
> >
> > and the command for writing a matrix to the header of another image is
> >
> > spm_get_space('another_imagename', M)
> >
> > Once all the headers encode the right orientations etc, then you can
> > simply
> > use the coregister (reslice only) option of SPM to reslice an image to
> > match
> > any other image from that subject.
> >
> > Best regards,
> > -John
> >
> > On Wednesday 12 November 2008 19:55, Alessio Tallarita wrote:
> >> Dear all,
> >> I would like to resample some volume images with the transformation
> >> matrix
> >> contained in rp_1.txt create with SMP5.
> >> Initially I have realign all images with SPM and after I have quantified
> >> them. In a second step I have first quantify the same original image and
> >> I
> >> have to apply the same transformation contained in rp_1.txt (create in
> >> the
> >> previous step) to compare the results of realign and quantification
> >> obtained with the two different process.
> >> Is there in SPM a command line instruction (or menu option) that permit
> >> me
> >> to write out a resampled volume with the transformation matrix contained
> >> in
> >> rp_1.txt ?
> >>
> >> Many thanks for any suggestions.
> >>
> >> Alessio Tallarita
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