Hi, the registrations may work out more stably if you reorient
everything into the same axial-based orientation as the standard
space templates, using fslswapdim.
Also, it looks like your two different acquisitions appear very
different in contrasts to each other, in which case you will not
generally be able to combine those two datasets into the same study-
analysis.
Cheers Steve.
On 22 Oct 2007, at 21:44, Peter van Vliet wrote:
> Dear all,
>
> hopefully someone can help me with the following problem:
>
> I have a series of scans from patients that were scanned in several
> years time. All T1 series were coronally scanned. Most T1 scans are
> in 256x256x120 matrix, but some of the later scans are in a
> 512x512x120 matrix. I'd like to use the sienax script to do both
> grey and white matter segmentation.
>
> For the 256x256 scans this goes fine, but I face problems with the
> 512x512 scans. Somehow the alignment to the MNI standard brain goes
> awry. The whole sienax script is run without any errors appearing
> under the command line, but only a small part of the brain is
> segmented, because the standard-mask is wrongly created.
>
> To make the final outcome a bit clearer I uploaded the I2std.png
> and I_masks.png for both a 256x256 and a 512x512. They can be found
> at:
>
>
> http://www.filesend.net/download.php?
> f=e9c9ac9cc8d96d8bc8e4ddad7f6bc909
>
> http://www.filesend.net/download.php?
> f=fa4a024cef9d7ab966d6a3ccc1cb51a1
>
> http://www.filesend.net/download.php?
> f=bf137a0db2d299a18548d7cc693c355f
>
> http://www.filesend.net/download.php?
> f=67ef0717f9a4fcaf2b9cc97cc8493a52
>
>
> The files appear in the left bottom after 10-15 seconds. Don't push
> on the add-download button.
>
> Does anyone have an idea how I can solve this problem?
>
> Greetings,
>
> Peter van Vliet, PhD-student, dept. gerontology & geriatrics,
> Leiden University Medical Center, Netherlands
> _________________________________________________________________
> Express yourself instantly with MSN Messenger! Download today it's
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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