Hi,
> Good point. Anyway, creating new DARTEL templates does not take too much
> time, I saw.
Well, you can see if this is the way you want to go. But then again, you
could also use an externally-generated DARTEL template (such as the one
coming with vbm8), or you could generate one from a control population
that neither the patient nor your controls contributed to (such as the
IXI dataset). This would then be "equally unfair" to both.
> Sorry to insist, but what about my second question:
>
> Is there a recommended way how to normalize the whole T1 image? Is
> it automatically done when I select the initial T1 together with the
> c1, c2, c3 images in the normalizeMNI step? I am not sure if the
> image look OK like this.
I do not use DARTEL much, and if so, from the command line, and not for
the T1. Have you tried it to see what it looks like? What does the
manual say? Can you take the deformation fields and apply them?
Cheers,
Marko
> 2014-04-07 8:50 GMT+02:00 Marko Wilke <[log in to unmask]
> <mailto:[log in to unmask]>>:
>
> Hi Markus,
>
> > Thanks for your diverse input ;-)
>
> That's science :)
>
> > @Marko: Yes, I plan to compare each patient to the healthy data
> base of
> > 70 patients (detection of local pathology).
> [...]
> > So is the difference of 1 additional patient in the 70 other subjects
> > really critical, given the smoothing, the SNR etc.?? Has this been
> > evaluated?
>
> Not sure this has been evaluated rigorously, but my usual point is: what
> do you reply to a reviewer who asks you to demonstrate why the
> difference between subjects that you see in the end is not due to a
> difference in data processing? And your answer is going to be "I hope it
> is not" because you cannot prove it. If you have processed your controls
> in a systematically different way than your patient, this is simply an
> irreconcilable difference that you cannot make up. It is like scanning
> children on one scanner and adults on another scanner and then finding
> the effects of age. You cannot, as age is confounded by scanner
> difference. In how far this effect is huge, I cannot tell you, but then
> again, you do not usually look for huge effects in a patient anyway.
>
> Cheers,
> Marko
> --
> ____________________________________________________
> PD Dr. med. Marko Wilke
> Facharzt für Kinder- und Jugendmedizin
> Leiter, Experimentelle Pädiatrische Neurobildgebung
> Universitäts-Kinderklinik
> Abt. III (Neuropädiatrie)
>
>
> Marko Wilke, MD, PhD
> Pediatrician
> Head, Experimental Pediatric Neuroimaging
> University Children's Hospital
> Dept. III (Pediatric Neurology)
>
>
> Hoppe-Seyler-Str. 1
> D - 72076 Tübingen, Germany
> Tel. +49 7071 29-83416 <tel:%2B49%207071%2029-83416>
> Fax +49 7071 29-5473 <tel:%2B49%207071%2029-5473>
> [log in to unmask]
> <mailto:[log in to unmask]>
>
> http://www.medizin.uni-tuebingen.de/kinder/epn/
> ____________________________________________________
>
>
--
____________________________________________________
PD Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Universitäts-Kinderklinik
Abt. III (Neuropädiatrie)
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
University Children's Hospital
Dept. III (Pediatric Neurology)
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
[log in to unmask]
http://www.medizin.uni-tuebingen.de/kinder/epn/
____________________________________________________
|