AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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rick reynolds
October 08, 2016 11:44AM
Hi Linda,

When using something like the FreeSurfer parcellation,
this is not a clustering step but an ROI step. It should
be enough to run 3dROIstats (3dmaskave, or whatever) on
such datasets. For example, from the same directory: 

set hem = lh
3dVol2Surf  -spec          ../SurfData/SUMA/std.DemoSubj_${hem}.spec   \
            -surf_A        std.${hem}.smoothwm.asc                     \
            -surf_B        std.${hem}.pial.asc                         \
            -sv            DemoSubj_SurfVol_Alnd_Exp+orig      \
            -grid_parent   DemoSubj_EccExpavir.DEL+orig        \
            -map_func      ave                                 \
            -f_steps       10                                  \
            -f_index       nodes                               \
            -oob_value     0                                       \
            -out_niml      r.v2s.${hem}.DEL.niml.dset

3dROIstats -minmax -mask ../SurfData/SUMA/std.lh.aparc.a2005s.annot.niml.dset r.v2s.lh.DEL.niml.dset

How does that seem?

- rick
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Subject Author Posted

SUMA again

heiding66 September 23, 2016 02:40PM

Re: SUMA again

rick reynolds September 23, 2016 08:11PM

Re: SUMA again

heiding66 September 27, 2016 04:20PM

Re: SUMA again

heiding66 September 30, 2016 04:07PM

Re: SUMA again

rick reynolds September 30, 2016 04:42PM

Re: SUMA again

heiding66 October 04, 2016 01:48PM

Re: SUMA again

heiding66 October 06, 2016 01:27PM

Re: SUMA again

rick reynolds October 08, 2016 11:44AM

Re: SUMA again

heiding66 October 08, 2016 04:20PM

Re: SUMA again

rick reynolds October 08, 2016 11:32AM