Thank you so much!
On Tue, May 21, 2019 at 10:53 AM Matthew Webster <
[log in to unmask]> wrote:
> If you modify the line in $FSLDIR/bin/easythresh reading:
>
> SM=`${FSLDIR}/bin/smoothest -z $1 -m $2`
>
> to
>
> DOF=`stats/dof`
> SM=`${FSLDIR}/bin/smoothest -d $DOF -m mask -r stats/res4d`
>
> Then that should get the results closer - note that this assumes the
> script will be run in the relevant FEAT directory, since the paths to
> dof/mask/res4d are relative.
>
> Kind Regards
> Matthew
> --------------------------------
> Dr Matthew Webster
> FMRIB Centre
> John Radcliffe Hospital
> University of Oxford
>
> > On 15 May 2019, at 15:17, Leslie Cao <[log in to unmask]> wrote:
> >
> > Thank you, Matthew. That explains a lot. Is there a way to feed the
> smoothness file to easythresh so it can produce the same result as the Feat
> post-stat GUI?
> > Thanks,
> > Wen
> >
> > On Wed, May 15, 2019 at 8:04 AM Matthew Webster <
> [log in to unmask]> wrote:
> > Dear Wen,
> > Without looking at the exact calls, I would suspect that this
> difference may arise from the difference in how data smoothness is
> estimated - in the GUI pipeline ( FEAT? ) the smoothness is estimated from
> the residuals, while in easythresh it is estimated from the stat itself.
> Without knowing the ground-truth result, generally the FEAT results would
> be expected to be more accurate.
> >
> > Kind Regards
> > Matthew
> > --------------------------------
> > Dr Matthew Webster
> > FMRIB Centre
> > John Radcliffe Hospital
> > University of Oxford
> >
> >> On 14 May 2019, at 16:28, Leslie Cao <[log in to unmask]> wrote:
> >>
> >>
> >>
> >> ---------- Forwarded message ---------
> >> From: Leslie Cao <[log in to unmask]>
> >> Date: Wed, May 8, 2019 at 3:40 PM
> >> Subject: cluster correction using easythresh and GUI
> >> To: FSL - FMRIB's Software Library <[log in to unmask]>
> >>
> >>
> >> Dear FSL experts,
> >> I am working on the cluster correction of an interaction image and
> found different results using easythresh and GUI. If I corrected the image
> at 3.1 0.01 in the GUI, there is nothing significant. However, if I correct
> the same zfstat image using easythresh at 3.1 0.01, I got two significant
> clusters. Is there an explaination for why this happened? Is the easythresh
> version valid?
> >> Thanks,
> >> Wen
> >>
> >> To unsubscribe from the FSL list, click the following link:
> >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
> >>
> >
> >
> > To unsubscribe from the FSL list, click the following link:
> > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
> >
> >
> > To unsubscribe from the FSL list, click the following link:
> > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
> >
>
> ########################################################################
>
> To unsubscribe from the FSL list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>
########################################################################
To unsubscribe from the FSL list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
