depends on your analysis but probably so

On 04/06/2017 05:26 PM, stdp82@virgilio.it wrote:

Thanks. The file could not be open by fslview. I presume that it is inflated. How can I do to transform it? Stefano

----Messaggio originale----
Da: "Douglas Greve" <greve@nmr.mgh.harvard.edu>
Data: 6-apr-2017 17.56
A: <freesurfer@nmr.mgh.harvard.edu>
Ogg: Re: [Freesurfer] R: R: Re: R: Re: Whole preprocessing with
FAST without to perform a seed based analysis

It will be in the space that you analyzed it in. If you want the
native space, then use -native when running preproc-sess and
mkanalysis


On 4/6/17 2:34 AM, stdp82@virgilio.it wrote:

...

Furthermore, the res-001.nii which is produce in produced in the
res folder in not the same dimension of f.nii.
I would do the whole FAST preprocessing on f.nii., maintaining
the same dimension and open it with FSL.
Thanks
Stefano

    ----Messaggio originale----
    Da: stdp82@virgilio.it
    Data: 5-apr-2017 23.39
    A: "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu>
    Ogg: [Freesurfer] R: Re: R: Re: Whole preprocessing with FAST
    without to perform a seed based analysis

    Hi,

    as you advise I have run selxavg3-sess with the -svres option.
    I found a folder called "res" which contain "res-001.nii". Is
    it the f.nii fully processed?
    Thanks
    Stefano

        ----Messaggio originale----
        Da: "Douglas Greve" <greve@nmr.mgh.harvard.edu>
        Data: 14-mar-2017 17.38
        A: <freesurfer@nmr.mgh.harvard.edu>
        Ogg: Re: [Freesurfer] R: Re: Whole preprocessing with
        FAST without to perform a seed based analysis

        You can't  on either occasion just using preproc-sess.
        You can create an analysis with those components, then
        run selxavg3-sess with the -svres option. This will
        create a folder called eres with volumes that have had
        all the nuisance variables and low freqeuncies regressed out


        On 3/14/17 12:32 PM, stdp82@virgilio.it wrote:

...

        Thanks.
        1- By using only preproc-sess, how can I perform "band
        pass filtering"?
        2- And how can I take in account the nuisance variables:
        the CSF from which the top 5 principle components, the
        white matter from which the top 5 principle components,
        motion correction parameters (-mcextreg), 5th order
        polynomial. How can I eliminate the first 4 time points?
        Regards
        Stefano

            ----Messaggio originale----
            Da: "Douglas Greve" <greve@nmr.mgh.harvard.edu>
            Data: 14-mar-2017 16.14
            A: <freesurfer@nmr.mgh.harvard.edu>
            Ogg: Re: [Freesurfer] Whole preprocessing with FAST
            without to perform a seed based analysis

            just use preproc-sess


            On 3/14/17 10:45 AM, stdp82@virgilio.it wrote:

...

            Hi list,
            in FS-FAST, on rs-fMRI data, is possible to run
            selxavg3-sess without -a option?
            I would use whole the FS-FAST to preprocess my
            data. I would include the mkanalysis-sess step but
            I would not perform a seed-based analysis.
            Thanks
            Stefano


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