Am Di., 13. Aug. 2019 um 22:51 Uhr schrieb Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu>:

That is in response to a 60 sec stimulus. The time window is the time
needed to account for a very brief stimulus (ie, the impulse response).
fsfast will automatically take into account the duration of the stimulus
as listed in the paradigm file.

On 8/13/19 2:14 PM, Caspar M. Schwiedrzik wrote:
>
> External Email - Use Caution
>
> Hi Doug,
> Thanks for the advice.
> I think the Leite et al. 2002 NeuroImage paper can be interpreted that
> way. See Figure 1 and 2.
> https://urldefense.proofpoint.com/v2/url?u=http-3A__pop.cerco.ups-2Dtlse.fr_pdf0609_leite-5Ffp-5F02-5F283.pdf&d=DwIGaQ&c=JeTkUgVztGMmhKYjxsy2rfoWYibK1YmxXez1G3oNStg&r=sgvCAzCi3iTXkTNRRVMpDnC6tu0lnijYpKXIX_UNme8&m=eAOAyZnFl2mF0kq1dbzrVLi05dYWhd00N8Sz06JBRgs&s=_NKVTMtmRmOeLrYx6styS12TMjsFNuVd2jKFxUKr85Y&e=
>
> Caspar
>
> On Tue, Aug 13, 2019 at 17:12 Greve, Douglas N.,Ph.D.
> <DGREVE@mgh.harvard.edu <mailto:DGREVE@mgh.harvard.edu>> wrote:
>
> When you use -gammafit, it automatically sets the time window to
> 40. If
> you really want it at 80, but -timewindow before -gammafit. Do you
> really expect the MION hrf to last 80 sec?
>
> On 8/13/19 11:06 AM, Caspar M. Schwiedrzik wrote:
> >
> > External Email - Use Caution
> >
> > Hi!
> > I am having difficulties setting the timewindow parameter in
> > mkanalysis-sess in Freesurfer v5.3.
> > I am trying to use 80 (data acquired with MION), but the parameter
> > does not seem to affect analysis.info <https://urldefense.proofpoint.com/v2/url?u=http-3A__analysis.info&d=DwIGaQ&c=JeTkUgVztGMmhKYjxsy2rfoWYibK1YmxXez1G3oNStg&r=sgvCAzCi3iTXkTNRRVMpDnC6tu0lnijYpKXIX_UNme8&m=eAOAyZnFl2mF0kq1dbzrVLi05dYWhd00N8Sz06JBRgs&s=r6h1NqLGmsc3cSyXVgnrkGSvJNA79vDmmSjMUdNwGOA&e= >
> <https://urldefense.proofpoint.com/v2/url?u=http-3A__analysis.info&d=DwIGaQ&c=JeTkUgVztGMmhKYjxsy2rfoWYibK1YmxXez1G3oNStg&r=sgvCAzCi3iTXkTNRRVMpDnC6tu0lnijYpKXIX_UNme8&m=CYJUPBXH2fLSD5LjpZmYtjXWz_bC8zt7q5gobDE5VLs&s=Ba7XLDz4JrZXYf4-uKSwAzN0dCldTpp68Yck9EDkQ4s&e=
> >, where it
> > is always 40.
> > Is it possible to force a different timewindow?
> > Below is some info from analysis.info <https://urldefense.proofpoint.com/v2/url?u=http-3A__analysis.info&d=DwIGaQ&c=JeTkUgVztGMmhKYjxsy2rfoWYibK1YmxXez1G3oNStg&r=sgvCAzCi3iTXkTNRRVMpDnC6tu0lnijYpKXIX_UNme8&m=eAOAyZnFl2mF0kq1dbzrVLi05dYWhd00N8Sz06JBRgs&s=r6h1NqLGmsc3cSyXVgnrkGSvJNA79vDmmSjMUdNwGOA&e= >
> <https://urldefense.proofpoint.com/v2/url?u=http-3A__analysis.info&d=DwIGaQ&c=JeTkUgVztGMmhKYjxsy2rfoWYibK1YmxXez1G3oNStg&r=sgvCAzCi3iTXkTNRRVMpDnC6tu0lnijYpKXIX_UNme8&m=CYJUPBXH2fLSD5LjpZmYtjXWz_bC8zt7q5gobDE5VLs&s=Ba7XLDz4JrZXYf4-uKSwAzN0dCldTpp68Yck9EDkQ4s&e=
> >.
> > Thanks, Caspar
> >
> >
> > # FSBUILD freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> > # MKAVERSION $Id: mkanalysis-sess,v 1.64.2.5 2013/01/22 21:52:07
> greve
> > Exp $
> > # MKACMD /neuro_tools/freesurfer/fsfast/bin/mkanalysis-sess -fsd
> bold
> > -native -timeoffset -2/2 -event-related -paradigm xxxx.para
> > -nconditions 4 -TR 2 -gammafit 0 8 -gammaexp 0.3 *-timewindow 80*
> > -refeventdur 0.5 -polyfit 2 -hpf 0.0109 -analysis xxxx -funcstem
> xxxx
> > -runlistfile xxxx.list -nuisreg motion.dat 6 -tpef tpef.dat
> -acfbins
> > 14 -acffwhm 0 -mask xxxx -force
> >
> >
> > analysis xxxx
> > mcstem fmc
> > funcstem xxxx
> > fsd bold
> > runlistfile xxxx.list
> > TR 2
> > RegDOF 6
> > PerSession 1
> > RawSpace volume native
> > mask xxxx
> > RawFWHM 0
> > RawSTC none
> > UseB0DC 0
> > ApplySubCortMask 1
> > inorm 100
> > acfbins 14
> > fixacf 1
> > acffwhm 0
> > acfsvd 0
> > designtype event-related
> > tpexclude tpef.dat
> > nskip 0
> > polyfit 2
> > HPFCutoffHz 0.0109
> > HeteroGCor 0
> > nconditions 4
> > parname xxxx.para
> > RefEventDur 0.5
> > *timewindow 40.000000*
> > prestim 0
> > TER 0.050000
> > gamma 0 8 0.3 0
> > stimulusdelay -2/2
> > Condition 1 Condition01
> > Condition 2 Condition02
> > Condition 3 Condition03
> > Condition 4 Condition04
> > nuisreg motion.dat 6
> >
> > _______________________________________________
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
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> >
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