[MINC-users] mincbet

[Jon Erik Ween]

Thanks Vladimir

That was an issue, but has been corrected. I get the same problems  
with mincbet whether or not I change the header parameter and/or  
resample the volume with regular -dimsize. Actually, I seem to get  
better results by just changing the header and not reshaping the  
volume, but that's probably not the correct way to go about things. Is  
there another such parameter that might be off? I've tried comparing  
mincheader with a "good" scan, but there are so many differences that  
it's hard to know which are significant.

Thanks for your help.

Jon

Soli Deo Gloria

Jon Erik Ween, MD, MS
Scientist, Kunin-Lunenfeld Applied Research Unit
Director, Stroke Clinic, Brain Health Clinic, Baycrest Centre
Assistant Professor, Dept. of Medicine, Div. of Neurology
     University of Toronto Faculty of Medicine

Kimel Family Building, 6th Floor, Room 644
Baycrest Centre
3560 Bathurst Street
Toronto, Ontario M6A 2E1
Canada

Phone: 416-785-2500 x3648
Fax: 416-785-2484
Email: jween at klaru-baycrest.on.ca


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On 15-Apr-09, at 8:07 PM, Vladimir S. Fonov wrote:

> Hello,
>
> Jon Erik Ween wrote:
>> Would anybody know why volumes from the same scanner would yield
>> vastly different mincbet results? On several scans, I wind up with
>> only half the brain masked. I've tried with and without nu_correct
>> first, though mincbet on the nu_corrected file often results in seg
>> faults. Is there any way to compare the image files to see why and  
>> how
>> they are different (I'm not sure what the critical parameters might
>> be). Any suggestions would be appreciated.
> This looks a lot like errors caused by irregular sampling , the easies
> way to check is to do
> mincheader your_file.mnc |grep irregular
> if you get something - the easies way to fix is just to replace it  
> with
> regular sampling (for example if you happen to have irregular sampling
> in xspace):
>
> minc_modify_header -sinsert 'xspace:spacing=regular__' your_file.mnc
>
> -- 
> Best regards,
>  Vladimir S. Fonov ~ v.s.fonov <at> ilmarin.info
>
> -- 
> Best regards,
>  Vladimir S. Fonov ~ vladimir.fonov <at> gmail.com
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