Re: [Freesurfer] vol2subfield single time course from multiple regions

External Email - Use Caution

By visualizing the output by freeview, I found that it was the same of ThalamicNuclei.v10.T1.mgz.

Thanks

Il 11 maggio 2020 alle 2.19 Bruce Fischl < fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu > ha scritto:


Hi Stefano

can you elaborate? Why do you suspect there is an error?

cheers
Bruce
On Mon, 11 May
2020, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:


    > >                 External Email - Use Caution        

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    Please, could you check the command line.
    I suspect that an error is there.
    Thanks.
    Stefano

    mri_binarize --i ThalamicNuclei.v10.T1.mgz --replace-only 8130   8133 --o
    Left-Ventroposterior.mgz


> 

    > >         Il 30 aprile 2020 alle 18.51 "Douglas N. Greve"

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    < dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu > ha scritto:

> 

    > >         You can use mri_binarize --i ThalamicNuclei.v10.T1.mgz

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    --replace-only segid segidreplace ... --o newseg.mgz
    to create a new segmentation with merged segments, then using
    vol2subfield with the newseg seg as --sf

> 

    > >         On 4/29/2020 7:57 PM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:

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> 

    > >                 External Email - Use Caution        

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> 

    > >         Hi list,

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> 

    > >         vol2subfield --i fmcpr.nii.gz --reg register.dof6.lta --sf

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    ThalamicNuclei.v10.T1.mgz --stats stats.dat --avgwf
    avgwf.dat --avgwfvol avgwfvol.mgz --o f2subf.nii.gz

> 

    > >         extracts the time course from each thalamic subregions.

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> 

    > >         If I would like to merge multiple regions (e.g. --id 8115

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    --id 8116) and extract a single time course from them,
    which is the way?

> 

    > >         Thanks

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> 

    > >         Stefano

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