Hi
the mask melodic uses does get saved in the groupmelodic.ica folder -
there certainly should not be any voxels within any of the components
outside this mask. Wrt fsl_glm : just use the -c option and supply
a .con file generated by the Feat or the Glm setup program. Have
forgotten to list -c in the command line help, will be added to the
next release
hth
christian
On 13 Nov 2007, at 16:23, Ilya Veer wrote:
> Hi,
>
> I have a question regarding multi-session temporal concatenation in
> Melodic. The top of the brain is not scanned in about one third of
> my subjects. A mean mask, including voxels that are present in all
> subjects, is correctly generated by melodic. However, several
> components found in the group ica do show a spatial pattern
> exceeding this mask. Does melodic not take the mask information into
> account? Should I therefore only look at components with spatial
> patterns within the borders of the mean mask or maybe use fslroi
> beforehand to exclude these voxels? Any suggestions would be greatly
> appreciated.
>
> Second, I tried the fsl_glm command to redo post-stats on the
> melodic subject modes (melodic_Smodes) using another design matrix
> and other contrasts. However, I could not find a way to include a
> contrast file. How does one do this using the fsl_glm command?
>
> Many thanks in advance!
>
> Ilya Veer
> Leiden Institute for Brain and Cognition
>
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