[MINC-users] Best plane (axial or coronal) for CIVET processing?

[Nam, Kie Woo]

Dear Dr Andrew Janke,

Thank you very much for this precious information. The reason why I've been using "ana2mnc" was just that it came up on top of the google search results list.

Anyway, I've now used "nii2mnc", and have further questions. So, I would very much appreciate your further advice.




I've checked that the axial and coronal MINC images do not align when loaded using "register" (shown in attached the image) even though both the coronal and axial images have the same (1) messages displayed on terminal during nii2mnc conversion, (2) "mincheader" outputs and (3) "mincstats" outputs (shown in attached the Excel sheet).




So, could you please tell me whether the nii2mnc conversion has been done properly? If not, I would be grateful if you would advise me on how to fix this. Please be reminded that my interest is not in having both axial and coronal MINC images, but just making sure the UNC-to-Analyze-to-MNC has been done successfully whether it's is in axial or coronal plane.

Many thanks,

Kie Woo


________________________________________
From: minc-users-bounces at bic.mni.mcgill.ca [minc-users-bounces at bic.mni.mcgill.ca] on behalf of Andrew Janke [a.janke at gmail.com]
Sent: 21 March 2012 20:09
To: MINC users mailing list
Cc: Simmons, Andy
Subject: Re: [MINC-users] Best plane (axial or coronal) for CIVET processing?

Hi all,

On 22 March 2012 04:07, Nam, Kie Woo <kie_woo.nam at kcl.ac.uk> wrote:
> ana2mnc: No x origin info found, guessing..
> ana2mnc: No y origin info found, guessing..
> ana2mnc: No z origin info found, guessing..
>
> Anyway, thanks to your clarification, my concern is not about whether to use axial or coronal images any more. Instead, I now wish to check whether the "ana2mnc" worked correctly.

I'm curious as to why you are using ana2mnc and not nii2mnc? nii2mnc
is part of MINC itself and can handle both ANALYZE and Nifti-1 data.
nii2mnc was written as a replacement to ana2mnc a while back.


a
_______________________________________________
MINC-users at bic.mni.mcgill.ca
http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users