Hi - if you do as suggested (match volume counts across runs) to get group maps, you could then run dualreg against the full original datasets?
Cheers
--------------------
Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington,
Oxford. OX3 9 DU, UK
+44 (0) 1865 222726 (fax 222717)
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http://www.fmrib.ox.ac.uk/~steve
----------------------
On 23 Nov 2011, at 00:38, Craig Moodie <[log in to unmask]> wrote:
> Hi David,
>
> thanks for the reply. I thought of doing this, and it wouldn't matter as much if I was comparing resting scans. However, I want to compare task-related ICNs and, therefore, cannot afford to delete any volumes.
>
> I'm thinking that there must be a way to hijack the command line melodic. If I can get it to run without anything from the inputreg folder like the mask or bg_image, this might be possible.
>
> Any thoughts anyone?
>
> Thanks,
> Craig.
>
>
> On Nov 22 2011, David Soto wrote:
>
>> Hi,
>>
>> What I do is to use fslroi to make all the runs to have the same volumes-
>> eg discarding volumes to match all runs
>>
>> the command is fslroi 4Dfileoriginal new4Dfile 0 numberofvolumes
>>
>> where 4Dfileoriginal is the original dataset from which you want to cut
>> new4Dfile is selfexplanatory
>> 0 equals to the first volume in the run
>> numberofvolumes is the number you want to have and which is contained
>> across all your study runs
>>
>>
>>
>> for i in STL01 STL03 STL04 STL05 STL08 STL09 STL10 STL11 STL12 STL13 STL14
>> STL15 STL16 STL17 STL18 STL19 STL20 STL21 STL22; do for j in run1 run2
>> run3; do fslroi /home/dsoto/Documents/fmri/stereofsl/$i/$j/4D.nii.gz
>> /home/dsoto/Documents/fmri/stereofsl/$i/$j/new4D.nii.gz 0 498; done; done;
>>
>> On Tue, Nov 22, 2011 at 11:32 PM, Craig Moodie <[log in to unmask]> wrote:
>>
>>> Hello experts,
>>>
> I am currently completing a data analysis in which I would like to be able
>>> to look for shared components across three different scan types that have
> three different durations and subsequent volume totals. I have been having
> trouble getting the FSL software to do this due to a volume mismatch in the
> preprocessing. Hence, I was wondering if it is possible to get around this
>>> issue by finding a way to generate a general template and running a
>>> group-level melodic at the command line that somehow accounts for the
> differences in scans? I would really appreciate the advice and I'll be sure
>>> to acknowledge you once I get this to work!
>>>
>>> Warm regards,
>>> Craig.
>>>
>>
>
> --
> Craig Moodie,
> PhD Student,
> Department of Neuroscience,
> University of Minnesota Medical School.
> Tel:(651)408-4907
>
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