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

History of AFNI updates  

|
February 24, 2004 12:26PM
Surely you jest!

Here are the command lines I used for the particular participant (for whom I have uploaded all the necessary files in the tar'd directory JeremySkipper.tgz):

foreach x (002)
foreach H (lh rh)
foreach LC (av.pa)

3dVol2Surf -spec mcgurk"$x"_"$H"_mesh160_std.spec -surf_A mcgurk"$x"_"$H"_mesh160_stdSmoothwm.asc -surf_B mcgurk"$x"_"$H"_mesh160_stdPial.asc -sv mcgurk"$x"_SurfVol_Alnd_Exp+orig -grid_parent mcgurk.deconvolution+reg."$LC"."$x"+orig -map_func ave -f_steps 10 -f_index voxels -oob_index -1 -oob_value 0.0 -no_headers -out_1D "$H".160.mcgurk.deconvolution+reg."$LC"."$x".1D

SurfSmooth -spec mcgurk"$x"_"$H"_mesh160_std.spec -surf_A mcgurk"$x"_"$H"_mesh160_stdSmoothwm.asc -add_index -met LB_FEM -input "$H".160.mcgurk.deconvolution+reg."$LC"."$x".1D\[6..17] -Niter 100 -fwhm 8 -add_index -output "$H".160.sm8.mcgurk.deconvolution+reg."$LC"."$x".1D
end
end
end

I have now tried different blurs: @ fwhm 2-6 (100 interations) the blur looks nice but @ 8-12 the the phenomenon shown in the right two maps at [home.uchicago.edu] occurs (the left most map shown in that picture is no blur)....

I've yet to try varying the number of interations.

Thanks,
Jeremy
Subject Author Posted

More surfsmooth madness

Jeremy Skipper February 20, 2004 03:07PM

Re: More surfsmooth madness

Ziad Saad February 20, 2004 11:15PM

Re: More surfsmooth madness

Jeremy Skipper February 24, 2004 12:26PM

Re: More surfsmooth madness

Ziad Saad February 24, 2004 01:10PM

Re: More surfsmooth madness

Jeremy Skipper February 24, 2004 03:11PM

Re: More surfsmooth madness

Ziad Saad February 24, 2004 04:34PM

Re: More surfsmooth madness

Jeremy Skipper February 24, 2004 04:58PM

Re: More surfsmooth madness

Ziad February 24, 2004 05:34PM

Re: More surfsmooth madness

Jeremy Skipper March 02, 2004 07:29PM

Re: More surfsmooth madness

Ziad S. Saad March 03, 2004 10:53AM

Re: More surfsmooth madness

Jeremy Skipper March 03, 2004 01:21PM