On 21 Dec 2012, at 06:48, Himanshu Joshi <
[log in to unmask]> wrote:
> Thanks of your reply,
> But even for running a linear registration to standard space also follows the same pattern (see attached image)
>
> and regarding apply wrap application if I applywrap on MNIstandard template using this command.
> applywarp -i $FSLDIR/data/standard/MNI152_T1_2mm -r example_func \ --premat=std2exfunc.mat -o lowresmask -d float
>
> Can I be able to overlap melodic_IC file on the wrapped image I dont think so?
>
>
> Please provide the hint to write the command line to proceed
>
> On Fri, Dec 21, 2012 at 5:42 AM, Mark Jenkinson <
[log in to unmask]> wrote:
> Hi,
>
> Did you run nonlinear registration to standard space?
> If so then you need to use applywarp and the warp outputs to do the transformation.
>
> All the best,
> Mark
>
>
>
> On 19 Dec 2012, at 11:00, Himanshu Joshi <
[log in to unmask]> wrote:
>
>> Dear FSL experts,
>>
>> I had tried using this command
>> flirt -in melodic_IC -ref $FSLDIR/data/standard/MNI152_T1_2mm \ -out melodic_IC_hr -applyxfm -init ../reg/example_func2standard.mat
>> There is a change in field of view in melodic_hr file.
>>
>>
>> and the activations in the file (melodic_hr)seems to be shifted towards left after application of the above mentioned command they are not overlapping to standard template MNI152_T1_2mm
>>
>> If I apply same command to standard template the activations in melodic_hr file exactly matches but the FOV of standard template also changes and the axial and coronal images seems to be cut of a little because of modified FOV
>>
>> If you can please suggest some solution to the problem
>>
>> --
>> Himanshu Joshi
>>
>
>
>
>
> --
> Himanshu Joshi
> M.Tech. Cognitive & Neuroscience.
> Senior Research Fellow
> Department of Psychiatry
> NIMHANS, Bangalore
>
>
http://mbial.weebly.com/himanshu-joshi.html
