Yes,you need a time point exclusion file (-tpexclude filename option to
mkanalysis-sess). Run mkanalysis with -help to get more info on how to
create it.

On 01/25/2018 04:43 PM, Adam Martersteck wrote:
> Hi Freesurer experts,
>
> I’m looking to censor (drop volumes) from my resting state fMRI time
> series that violate a predetermined motion and signal threshold (FD
> and DVARS). I've already determined which volumes violate X and Y
> criteria.
>
> Is there a way to to tell FS to "ignore" these time points in the
> analysis such as in preproc-sess or mkanalysis-sess?
>
> If there is not and if I were to drop the volumes directly from the 4D
> file before starting any pre-processing and analysis  – would that be
> a problem for finding and regressing the auto-correlation in the time
> series?
>
> Thanks!
> Adam
>
>

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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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