That looks ok. I would try applying some spatial smoothing to see if you
can get something that looks reasonable
On 10/20/17 12:14 PM, Jiahe Zhang wrote:
Hi Freesurfer experts,
I would like to do a resting state analysis not in mni305, but in
subject's native subcortical space. Here is the command I wrote:
mkanalysis-sess -analysis seed.native -native -fwhm 0 -notask -taskreg
seed.dat 1 -nuisreg vcsf.dat 5 -nuisreg wm.dat 5 -nuisreg mcprextreg 2
-polyfit 5 -nskip 4 -fsd rest -TR 2.34 -per-run -lpf .08 -hpf .01
The output is a whole brain map with noisy dots everywhere but no
clusters (not even autocorrelation within seed location). Am I
specifying everything correctly? I know my seed.dat is not the issue
because I tested it using mkanalysis-sess -surface $subjectname and
the output is as expected.
Thanks,
Jiahe
--
Jiahe Zhang
Ph.D. Candidate
Department of Psychology
Northeastern University
617-373-2649
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