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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leetaey
October 16, 2016 08:26PM
Dear moderator,

I performed cortical thickness analysis as below

1. cortical parcellation using freesurfer
2. perform @SUMA_Make_Spec_FS
3. peform mris_convert -c lh.thickness lh.white lh.thickness.asc
4. perform 1dcat lh.thickness.asc'[4]' > rh.thickness.1D.dset <- what's mean the [4] ?
5. perform MapIcosahedrone -overwrite -ld 90 -fix_cut_ssurfaces -dset_map lh.thickness.1D.dset -spec lh.spec -prefix std.90/
6. perform SurfSmooth -met HEAT_07 -spec std.90.lh.spec -surf_A std.90.lh.smoothwm.asc -target_fwhm 30 -input std.90.lh.thickness.niml.dset -out lh.thickness.hk3.niml.dset
7. 3dttest++ -prefix lh.thickness.niml.dset -set A ~~ -setB ~~~

after making the result file "lh.thickness.hk3.niml.dset"
how can I see the result image file using SUMA (could you tell me the exact command?)
then, how can I see the statistical result? how can I make the analysis result table (cluster size, F or T, p-value, peak coordinates, brain regions.. etc)
Is there any documents for it?
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Subject Author Posted

reporting the results

leetaey October 16, 2016 08:26PM

Re: reporting the results

Peter Molfese October 19, 2016 12:36PM

Re: reporting the results

Daniel Glen October 19, 2016 01:40PM