Dear Neeraj,
I guess that the w* files you refer to are Analyze files? Then the
reason is probably that in NifTI files, there is always a co-ordinate
transform to put images in an `aligned' space. After nowmalisation, this
should be MNI space. In Analyze files there is no way to do this, that
is why an extra .mat file is necessary.
I am not really keen om .mat files either, because (as you say) they
only have a meaning inside MatLab. The best way to not have to use them
is to use NifTI files.
atb
Alle Meije Wink
Neeraj Mahajan wrote:
> I was using SPM2 till now, in it when I did normalization of PET images, the
> output w* files didn't have .mat files associated with them. So I could use
> the generated normalized files with some other software that understood
> Analyze format but didn't understand .mat files.
>
> But with SPM5, I found that after normalization, .mat files are also
> generated for the w* files. If I open the old normalized file (i.e. the one
> generated using SPM2) and the new normalized file in SPM5, the origin is set
> to same position. But if I open these two images in the other software, that
> doesn't understand .mat, I find that origin for them is not the same.
>
> Is there any option in SPM5 that would control the generation of .mat files?
> Or is there a way in SPM5 by which I can load the normalized image (along
> with its .mat transformations) and write an image that actually has the
> transformations applied to it. This would enable me to use the normalized
> file with other softwares.
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