Hi Bruce and Evelina,
I found what the problem was. In Expert Preferences Settings, WMFill, the default
value for "max same neighbors" is 8. I changed it to 1, then the surface seemed OK.
BTW, what does this value mean?
Thanks for your advice!
Xiangchuan
======== Start Of Original Message ========
Date: 2002-10-30 Time: 15:57:00
From: Bruce Fischl ([EMAIL PROTECTED])
To: freesurfer ([EMAIL PROTECTED])
Subject: Re: Re: Question on segmentation
>could you send the screen output (or log file if you're using csurf) of
>what you did? This is something we do routinely so there must be something
>wrong (do you have write permission? Check the output of mri_fill and make
>sure it's not failing).
>
>Bruce
>
>On Wed, 30 Oct 2002, Xiangchuan Chen wrote:
>
>> Hi Bruce,
>>
>> I have tried the procedure just as what you mentioned in your email, but it didn't
>work. I edited the wm volume, added some voxels with lower T1 value (around 85) as
>the part of white matter by comparing the wm and T1 volumes, saved the wm volume, and
>ran the Create Surface process again. After that, I still could not find significant
>improvement on the segmentation. It seemed that Create Surface didn't use the voxels
>I added. Are there any ideas on it?
>>
>> Thanks,
>> Xiangchuan
>>
>>
>> ======== Start Of Original Message ========
>>
>> Date: 2002-10-30 Time: 14:53:00
>> From: Bruce Fischl ([EMAIL PROTECTED])
>> To: freesurfer ([EMAIL PROTECTED])
>> Subject: Re: Question on segmentation
>>
>> >could you be more explicit about what you did? You should be able to edit
>> >the wm volume, save it, then rerun the filling and inflation to regenerate
>> >the surfaces incorporating your changes.
>> >
>> >cheers,
>> >Bruce
>> >
>> >--------------------------------------------------------
>> >Bruce Fischl email: [EMAIL PROTECTED]
>> >Mass. General Hosp. NMR Center. tel:(617)-726-4897
>> >Rm. 2328, Building 149, 13th Street fax:(617)-726-7422
>> >Charlestown, MA 02129 USA
>> >
>> >
>> >
>> >On Wed, 30 Oct 2002, Xiangchuan Chen wrote:
>> >
>> >> Hi all,
>> >>
>> >> I found that the segmentation of the white matter near the occipital pole of my
>data was not quite accurate. I tried to add some voxels to the wm volume there, but
>the FreeSurfer didn't take them into account. Then, how can I improve the
>segmentation at this part of brain?
>> >>
>> >> Thanks,
>> >> Xiangchuan Chen
>> >>
>> >>
>>
>> ========= End Of Original Message =========
>>
>>
========= End Of Original Message =========
