Oh yes, thanks, just to confirm, the COPE images I find to be merged
into a 4D file for use with randomise should be:
featdir/reg_standard/stats/cope1.nii.gz
Is it correct?
Best,
Julian
On Thu, Sep 29, 2016 at 10:16 AM, Anderson M. Winkler
<[log in to unmask]> wrote:
> Hi Julian,
>
> No no. You want the COPE images. The word "cope" appears distinctively on
> the file names.
>
> All the best,
>
> Anderson
>
>
> On 28 September 2016 at 12:19, Julian Macoveanu <[log in to unmask]>
> wrote:
>>
>> Thanks for the reply. Just to make sure I got the right files. After
>> processing with FEAT I get several images in the subject folders. Are
>> the right contrast images called for instance:
>>
>> thresh_zstat1.nii.gz
>>
>> if it is the 1st individual contrast I want to use in the group analysis?
>>
>> All the best,
>> Julian
>>
>> On Fri, Sep 16, 2016 at 10:59 PM, Mark Jenkinson
>> <[log in to unmask]> wrote:
>> > Hi,
>> >
>> >
>> >
>> > Yes, for group-level analysis you just assemble the COPE images from the
>> > first level, but after being transformed to standard space, into a
>> > single 4D
>> > file which is then the input to randomise.
>> >
>> >
>> >
>> > All the best,
>> >
>> > Mark
>> >
>> >
>> >
>> > From: FSL - FMRIB's Software Library <[log in to unmask]> on behalf of
>> > Julian Macoveanu <[log in to unmask]>
>> > Reply-To: FSL - FMRIB's Software Library <[log in to unmask]>
>> > Date: Friday, 16 September 2016 at 09:57
>> > To: "[log in to unmask]" <[log in to unmask]>
>> > Subject: Re: [FSL] Randomise in fMRI
>> >
>> >
>> >
>> > Thanks for the reply. Just to be clear, since I did not find any
>> >
>> > examples on using randomise on fMRI data... for a group level analysis
>> >
>> > then, I simply construct a 4D file made from the individual 1st level
>> >
>> > contrasts?
>> >
>> >
>> >
>> > Best,
>> >
>> > Julian
>> >
>> >
>> >
>> > On Fri, Sep 16, 2016 at 10:17 AM, Anderson M. Winkler
>> >
>> > <[log in to unmask]> wrote:
>> >
>> > Hi Julian,
>> >
>> >
>> >
>> > Because the temporal autocorrelation in FMRI timeserie, randomise isn't
>> >
>> > supposed to be used with 1st level analyses, only group level.
>> >
>> >
>> >
>> > All the best,
>> >
>> >
>> >
>> > Anderson
>> >
>> >
>> >
>> >
>> >
>> > On 15 September 2016 at 09:05, Julian Macoveanu
>> > <[log in to unmask]>
>> >
>> > wrote:
>> >
>> >
>> >
>> > Dear all,
>> >
>> >
>> >
>> > I am considering non-parametric estimation of fMRI data using
>> >
>> > randomise. I am however not sure how to construct the 4D input file. I
>> >
>> > have made all individual 4D files which I used for the FEAT analysis.
>> >
>> > Also not sure how to inform randomise on the onset times.
>> >
>> >
>> >
>> > Thankful for any input,
>> >
>> > Julian
>> >
>> >
>> >
>> >
>> >
>> >
>
>
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