[MINC-users] Skull stripping

[Jon Erik Ween]

Claude

I just noticed that you are on the CIVET team and work with Alan  
Evans. It may interest you to know that Alan and I have met as  
Stephen Strother and I are working with him to implement the MNI  
framework here at Rotman/KLARU. My understanding is that the database  
is up and running, but I don't know the status of the processing  
tools in BIC/mnc here.

I'm trying to get a pipeline set up to do lesion analysis (stroke),  
VBM and VLSM. So any suggestions you could make regarding the getting  
the BIC/mnc tools or CIVET framework going here would be greatly  
appreciated!

(Another interesting factoid: I've been messing with MNI tools since  
my early days as a resident in the early '90s... They just don't seem  
to go away!)

Cheers

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 10-Dec-08, at 11:07 PM, Claude LEPAGE wrote:

> Hello,
>
>> Sorry for a newbee question, but no luck Google-ing this: Does anyone
>> have a link or howto on skull stripping MRIs in .mnc format? Bouncing
>> back and forth between mnc, nifti and analyze etc often gets
>> coordinate spaces confused, particularly with batch processing in
>> pipelines. Any help would be much appreciated!
>
> Of course, there is a tool. It is basically FSL bet with a minc
> interface and a few other modifications. It is available on demand,
> thus I don't think I want to post the link here. I will verify
> tomorrow and send you the link in a private communication. Remember
> that this tool is based on FSL bet, so you will have to acknowledge
> Stephen Smith's paper in your work. Agree?
>
> Yours,
>
> Claude
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
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>