Any takers on this?
On 7 Jul 2008, at 16:21, Colm G. Connolly wrote:
> Hi everybody,
>
> I've been running fslvbm on some datasets and I have an issue which
> has me stumped, hopefully someone here can shed light on it for me.
>
> I convert my original T1 images to RPI and place them in a
> directory, then rescale them (using tbss_1_preproc). I then proceed
> to run fslvbs_1_bet and fslvbm_2_template.
>
> When I look in the results of the of fslvbm2a.[oe]* to see how the
> segmentation went I see that fast is complaining about image
> flipping, even though the original images were in RPI.
>
> When I try to skull strip and segment the same data file by hand,
> there is no complaint from fast about flipping. Likewise, when I
> copy the ${subject}.anat_brain.{hdr,img} files into a separate
> directory and run fast on it using the same arguments as in the
> fslvbm2a script, I do not receive complaints from fast. This has me
> stumped.
>
> Should I be concerned about the complaint about flipping during the
> fslvbm_* pipeline Or can I safely ignore it?
>
> If it would help I can make all the data available for download.
Bye,
--
Dr Colm G. Connolly
School of Psychology and Institute of Neuroscience
The Lloyd Building
University of Dublin
Trinity College, Dublin 2, Éire
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