[Mristudio-users] Skull stripping

[Susumu Mori]

Hi Shaimaa,

If you don't skull strip, you are doing head-to-head registration. If you
skull-strip, it is brain-to-brain registration.
You could argue the latter would be more accurate if you are interested in
the brain.
However, the latter could be influenced by the quality of the skull-strip
and it usually requires manual quality control.


On Mon, May 26, 2014 at 9:19 AM, Shaimaa Abdelsattar
<shaimaa96 at hotmail.com>wrote:

> Thank you very much, i have an inquiry,  should this step be done before
> normalization to brain atlas, or normalization can be done correctly
> without this step(skull stripping)?
>
> Thanks again
> Shaimaa
>
>
> On May 25, 2014, at 9:39 PM, "Dorian P." <alb.net at gmail.com> wrote:
>
> Hi Shaimaa,
>
> If you did not get help on this, I think skull stripping helps. Those are
> voxels that we don't really need to have a part in the calculation (and
> they are not just part of the skull but inferior soft tissues as well).
>
> I used to do skull stripping by coregistering the T1 on FA, running
> segmentation of T1, and creating a mask of CSF and white matter. Then just
> multiply the mask with the FA. This can even be done automatically with a
> batch.
>
> Dorian
> TJU
>
>
> 2014-05-22 9:50 GMT-04:00 Shaimaa Abdelsattar <shaimaa96 at hotmail.com>:
>
>> Hello experts,
>> Is skull stripping a must do step before doing normalization?, if so,
>> what is its importance and how can it be done?
>>
>> Thanks
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