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Hi Steve,

thanks for the reply and that is a good suggestion. Actually, and I have 
already done something similar with dual reg, in which I have used the mask 
from one scan type with inputs from the other and vice versa. Do you think 
comparing the outputs of these dual regs will us useful?

Also I have thought about doing what you suggested, but I am using scans 
from task paradigms. What if cutting off task-related volumes at the end of 
the longer scan affects task-related components that are generated across 
the length of that scan. Won't this be artificially influencing my data, 
even if I take it back to the original individual level scans with dual 
reg?

Thanks,
Craig.


On Nov 23 2011, Stephen Smith wrote:

 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)
>[log in to unmask]
>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
>> 
>

-- 
Craig Moodie,
PhD Student,
Department of Neuroscience,
University of Minnesota Medical School.
Tel:(651)408-4907