[FieldTrip] holes in head

[Maris Skujevskis]

Thanks for your suggestion, Cristiano. However, the anatomical images do
cover the entire head!

There seem to be two possibilities - either there is something wrong in how
some lower level function employed by ft_volumerealign creates the head
surface out of my MR files or there are some real deformities present in my
MR images.

Since I do not have a well-trained eye for this, could someone take a quick
look at a couple of the original MR files of any of these subjects (same
link as previously): https://goo.gl/photos/txeai9EfFXCn4hQ17 and say
whether they look distorted in any way? Let me know and I will share the MR
files.

Best wishes,
Maris


> Date: Mon, 17 Aug 2015 11:46:38 +0200
> From: Cristiano Micheli <michelic72 at gmail.com>
> To: FieldTrip discussion list <fieldtrip at science.ru.nl>
> Subject: Re: [FieldTrip] holes in head
> Message-ID:
>         <CADW7XCD_78QQBAj1WvM=
> ZT2mdpTxePPwDT72z1hU9biQ7--ipA at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Dear Maris
>
> I am heavily guessing here, but are the anatomical MRI images cut on top? I
> only encountered this in the case that the MRI slices covered an incomplete
> volume of the head.
>
> It might be something else, though this is easy to check...
>
> Good luck
> Cris
>
>
> On Sat, Aug 15, 2015 at 7:02 PM, Maris Skujevskis <icelandhouse at gmail.com>
> wrote:
>
> > Dear Fieldtrip community,
> >
> > When plotting the head shape with ft_volumerealign (the input to the
> > ft_volumerealign function being simpy the output produced by the
> > ft_read_mri), some of the subjects show deep crater-like holes in the
> head
> > surface.
> > Images available here: https://goo.gl/photos/txeai9EfFXCn4hQ17
> >
> > Does anyone have an idea what might have caused these 'holes'?
> >
> > If this is incomplete information to be able to answer the question,
> > please ask so I can provide further details.
> >
> > Best wishes,
> > Maris
> >
> >
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