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
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