[FieldTrip] segmented brain seems not fitting the sensor helmet well

[Ye Mei]

Hello All,

I found the problem I mentioned in the previous email was caused by 
using "mri_sliced = ft_volumereslice([], mri);" before using 
ft_volumesegment.
After erasing the line "mri_sliced = ft_volumereslice([], mri);", the 
segmented brain seems to be normal and fits the sensor helmet well now, 
as show in the attached figure(notvolumnsliced.jpg).
For another of my subject, if the "ft_volumereslice" is included, the 
brain looks sliced on the top(subject2vs.jpg). If no "ft_volumreslice" 
it looks normal(subject2.jpg).

I notice in the fieldtrip headmodel tutorial 
(http://fieldtrip.fcdonders.nl/tutorial/headmodel_meg), 
"ft_volumereslice" is not used. but in the field trip beamformer 
tutorial(http://fieldtrip.fcdonders.nl/tutorial/beamformer), it is used.

I am wondering if I should include "ft_volumereslice" in my source 
localization code. Can anyone give me some suggestions?



thanks ahead,
Ye




On 13-02-28 11:45 AM, fieldtrip-request at science.ru.nl wrote:
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> Message: 1
> Date: Thu, 28 Feb 2013 11:38:21 -0500
> From: Ye Mei <frank.ye.mei at gmail.com>
> To: fieldtrip at science.ru.nl
> Subject: [FieldTrip] segmented brain seems not fitting the sensor
> 	helmet well
> Message-ID: <512F87FD.80500 at gmail.com>
> Content-Type: text/plain; charset="iso-8859-1"; Format="flowed"
>
> Hello FieldtripList,
>
> After segmentation and alignment using
> 'ft_volumesegment' and 'ft_volumerealign', one of the subjects' segmented
> brain seems rotated forward in the sensor helmet(brain.png) and the
> cerebellum part seems to be segmented out. However, his head MRI seems
> fitting the sensor helmet well(head.jpg). My another subject's brain
> seem to be correctly segmented without missing the cerebellum part. And
> the brain is not rotated forward.
>
> Could might be the problem?
>
> thanks ahead,
> Ye
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