Or is there a website I could be referred to? I tried the three designs
that made sense to me, but fsl doesn't seem to like them (as per the
warning in my first email). I thought a column where controls were 1s, a
column were patients were 1s, a column where visit 1 were 1s, and a column
where visit 2 were 1s.
Maybe it was my contrasts?
cv1: control visit 1
cv2: control visit 2
sv1: patient visit 1
sv2: patient visit 2
My contrasts were:
c s v1 v2
cv1>cv2 1 0 1 -1
sv1>cv1 -1 1 1 0
.
.
.
ect.
On Tue, Jan 17, 2012 at 12:02 PM, Louie Bird <[log in to unmask]>wrote:
> Thanks. How would you make a design contrast for 2 groups with two visits
> each?
>
> Thanks so much
>
> On Jan 17, 2012, at 11:37 AM, Matthew Webster <[log in to unmask]>
> wrote:
>
> > Hello,
> > This message is generally a sign that there is an issue with
> the design/contrast - it's probably best to kill the randomise task here
> and recheck the design. Alternatively you could try re-running the contrast
> with a different clustering option than TFCE, but I wouldn't expect the
> output to have any significant voxels.
> >
> > Many Regards
> >
> > Narrgew
> >
> >> After successfully running TBSS I wanted to investigate group
> comparisons. I made a design matrix/contrast by using glm_gui. I
> implemented those files in randomise. The first time I ran it everything
> seemed to work fine but I realized that my design was flawed. I made a new
> design and attempted again, but received the following message:
> >>
> >> randomise options: -i all_FA_skeletonised.nii.gz -o ../../TEST/tbss -m
> mean_FA_skeleton_mask -d ../../TEST/Test.mat -t ../../TEST/Test.con -n 500
> --T2 -V
> >> Loading Data:
> >> Data loaded
> >> 7.79255e+14 permutations required for exhaustive test of t-test 1
> >> Doing 500 random permutations
> >> Starting permutation 1 (Unpermuted data)
> >> Starting permutation 2
> >> Warning: tfce has detected a large number of integral steps. This
> operation may require a great deal of time to complete.
> >>
> >>
> >> Nothing has changed in 3 days. Can someone tell me what might be wrong?
> >>
> >> Thanks
> >> Lou
>
