Hi Paul,
all smoothing was done using the command line call to ip (the program
which does all the temporal and spatial filtering in Feat).
You probably want to re-apply a mask to the data after smoothing -
you can use avwmaths for that.
cheers
christian
On 12 May 2006, at 00:56, Paul Geha wrote:
> Thank you Christian,
>
> It was actually a size problem. I have another question about
> smoothing ICA maps.
> I am trying to reproduce the method you used in DeLuca et al, 2006
> in neuroimage (experiment 4) all my individual PICA maps are
> smoothed in the preprocessing step at 5 mm. There is however a
> smoothing step done after registration into standard space. I
> tried to do that in feat. It gave me garbage. How can I use FSL
> to smooth the PICA components before doing the spatial correlation?
>
> thanks again,
> Paul
>
>
> At 02:57 AM 5/11/2006, you wrote:
>> Hi
>>
>> yes, this should work, provided you don't run out of memory. You can
>> try and use avwsplit first, in order to convert to 3d images and then
>> merge these - that way you can more closely monitor the mem
>> consumption. How big are the individual files?
>>
>> cheers
>> christian
>>
>>
>>
>> On 11 May 2006, at 06:21, Paul Geha wrote:
>>
>>> HI
>>>
>>> I am trying to merge 12 subjects each with 30 components obtained
>>> from PICA into one single 4 D
>>> file (360 components), in order to run avwcc only once later . I
>>> used the command avwmerge on the
>>> 12 melodic_IC.nii.gz from the melodic output. I does not work;
>>> it gives a segmentation fault.
>>>
>>> can I do this concatenation at all in FSL?
>>>
>>> thanks a lot
>>> Paul
>>
>> --
>> Christian F. Beckmann
>> Oxford University Centre for Functional
>> Magnetic Resonance Imaging of the Brain,
>> John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
>> Email: [log in to unmask] - http://www.fmrib.ox.ac.uk/
>> ~beckmann/
>> Phone: +44(0)1865 222551 Fax: +44(0)1865 222717
>
> Paul Geha, M.D.
> Physiology Department
> Northwestern University
> 303 E Chicago Ave, M5-666
> Chicago, IL 60611
> Tel: (312) 503-2886
> Fax: (312) 503-5101
--
Christian F. Beckmann
Oxford University Centre for Functional
Magnetic Resonance Imaging of the Brain,
John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
Email: [log in to unmask] - http://www.fmrib.ox.ac.uk/~beckmann/
Phone: +44(0)1865 222551 Fax: +44(0)1865 222717
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