[MINC-users] mincreeample transformation problem

[Colin Shaun Hawco, M]

The EPI model is already in MNI space. It is the EPI template from SPM8. It is perfectly coregistered with the MNI152 template. in fact, the only reason for using the EPI_model at all is to move the data into a common space (in terms of voxel size and dimensions) for group comparison, and to make it possible for me to compare activities across studies. 

It occurs to me one possible solution to my problem is to abandon this step of resampling into the EPI model space. I am doing it as a sort of carry over from the way SPM does the normalization. But it is interpolating the data and resampling my voxels to 2x2x2 mm. I am not sure I see any good reason to do so, and maybe the best approach would be to keep the data in the native voxel size. 


Colin Hawco, PhD
Post Doctoral Researcher
Temerty Centre for Therapeutic Brain Intervention
Centre for Addiction and Mental Health (CAMH)
University of Toronto
"Disorder Expands"

________________________________________
From: minc-users-bounces at bic.mni.mcgill.ca [minc-users-bounces at bic.mni.mcgill.ca] on behalf of Vladimir S. FONOV [vladimir.fonov at gmail.com]
Sent: Thursday, April 04, 2013 1:23 PM
To: minc-users at bic.mni.mcgill.ca
Subject: Re: [MINC-users] mincreeample transformation problem

Hello,

On 13-04-04 12:08 PM, Colin Shaun Hawco, M wrote:
> So just to recap, the process for registration is as such:
>
>     mincANTS T1.mnc -> MNI_model.mnc   == T1-model.xfm
>
>     mincANTS EPI.mnc -> T1.mnc  ==  EPI-T1.xfm
>
>     xfmconcat EPI-T1.xfm T1-model.xfm concat.xfm
>
>     mincresample -like EPI_model.mnc -transformation concat.xfm EPI.mnc
> EPI_normalised.mnc
>
> ?
>
> And if you resample like the MNI_model things are good but if you
> resample like the EPI_model things go akimbo?

So, isn't it what's intended :

T1-model.xfm  -maps from T1.mnc to MNI_model
and EPI-T1.xfm -maps from EPI to T1.mnc

so, concat.xfm - maps from EPI to MNI_model

how do you coregister EPI_model and MNI_model ?



--
Best regards,

  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
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