Dear Pieter,
perhaps copying header info before going to analyze, and writing that
information back into the header when you convert it back to nifti might
work (assuming the image itself isnt touched by your tools, which is a
big IF). But this all depends on your tools that I dont know.
I became very wary of this conversion when I once tried it, and ever
since I make a large detour whenever I spot anything Analyze on my way.
Rewrote all our viewers/software to be nifti complient, makes life a lot
easier...
Good luck,
Bas
On 03/30/2012 04:51 PM, Pieter Vandemaele wrote:
> Dear Bas,
>
> This is also what I expected. The problem is I have to compare the images before
> and after processing with the analyze only program which I do not have
> sourcecode from.
> Is there a possible hack with copying headers etc?
> Best
>
> Pieter
>
>
>
>
> Op 30/03/2012 14:27, Bas Neggers schreef:
> > Dear Pieter,
> >
> > not sure this is completely possible: you will with certainty loose
> > information when going from Nifti to Analyze, as the Analyze header contains
> > less information about the image data than the Nifti header does (most notably
> > the voxel to world mapping), and reversely, some header fields from Analyze
> > are obsolete in Nifti. This means that when going back from Analyze to Nifti,
> > the converter will need to assume some information, make it up, or get it from
> > another file or through user input.
> >
> > Consequently, conversions can therefore be only approximate, and you will most
> > likely not end up with the same images when going Nifti> Analyze> Nifti.
> > This all concerns the header, but depending on how your tools work (which I
> > dont know), perhaps also the images itself.
> >
> > It is by far the best to stick with Nifti for everything you do. So when you
> > can make your other software Nifti complient, I'd recommend that. This of
> > course assumes you have access to the source code, which might not be the case.
> >
> > In that case, don't count on your images to match the original space when
> > going back and forth.
> >
> > Good luck,
> >
> > Bas
> >
> >
> >
> > On 03/30/2012 03:10 PM, Pieter Vandemaele wrote:
> >> Dear SPMers,
> >>
> >> I would like to convert nifti to analyze and vice versa for processing data with
> >> a program which has no support for nifti and then go back to spm with nifti.
> >> I used the nifti2ana routine from Darren Gitelman which did a great job, but I
> >> stumbled upon problems.
> >> To check if the conversion is exact I use Jimmy Shen's nifti tools like to
> >> load_untouch_nii function which does not take into account the scaling etc.
> >> When I load the original nifti and the corresponding analyze files with
> >> load_untouch_nii, I get different results when looking at the image data.
> >> This is an issue for me, because I really would like that the raw data is
> >> untouched and only the header changes to analyze with the correct parameters for
> >> scaling etc.
> >> Could someone please help me out, this is kind of urgent.
> >>
> >> Thanks in advance
> >>
> >> Pieter
> >>
> >>
> >>
> >> --
> >>
> >>
> >> *Pieter Vandemaele, *MSc-Ing
> >> *GIfMI Site Manager*
> >> Ghent Institute for Functional and Metabolic Imaging
> >> MR Department -1K12
> >> Ghent University Hospital
> >> De Pintelaan 185
> >> 9000 Ghent - BELGIUM
> >>
> >> [log in to unmask]<mailto:[log in to unmask]> tel: +32 (0)9
> >> 332 48 20
> >> http://gifmi.ugent.be fax: +32 (0)9 332 49 69
> >>
> >>
> >>
> >>
> >
> >
>
>
> --
>
>
> *Pieter Vandemaele, *MSc-Ing
> *GIfMI Site Manager*
> Ghent Institute for Functional and Metabolic Imaging
> MR Department -1K12
> Ghent University Hospital
> De Pintelaan 185
> 9000 Ghent - BELGIUM
>
> [log in to unmask]<mailto:[log in to unmask]> tel: +32 (0)9
> 332 48 20
> http://gifmi.ugent.be fax: +32 (0)9 332 49 69
>
>
>
>
--
--------------------------------------------------
Dr. S.F.W. Neggers
Division of Brain Research
Rudolf Magnus Institute for Neuroscience
Utrecht University Medical Center
Visiting : Heidelberglaan 100, 3584 CX Utrecht
Room B.01.1.03
Mail : Huispost B01.206, P.O. Box 85500
3508 GA Utrecht, the Netherlands
Tel : +31 (0)88 7559609
Fax : +31 (0)88 7555443
E-mail : [log in to unmask]
Web : http://www.neuromri.nl/people/bas-neggers
: http://www.brainsciencetools.com (CEO)
--------------------------------------------------
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