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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Ziad S. Saad
January 19, 2005 10:41AM
Hi Phil,

No definitive answers here, you should use what seems appropriate for testing your hypothesis... Some comments:

about 2-
You can transform IRFs to TLRC, you can even do your linear regression (deconvolution) on TLRCed time series, just don't use 1x1x1 for time series data or you'll end up with ginormous data sets (2x2x2 or 3x3x3 makes plenty more sense given the resolution of your EPI).

about 3-
You can always edit the clusters by hand to cut out some of the large clusters that appear to link across two regions of interest. You can also use the -1erode and -1dilate options of 3dmerge to separate sprawling clusters

about all-
For voxel-wise group stats, you are better off running the stats first on all voxels in the dataset (at least those inside the brain). Then focusing on the results in a particular ROI. Rather than apply the ROIs then perform the group statistics.

cheers,
-ziad
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Subject Author Posted

I need opinions on methods of defining ROIs (long)

Phil Burton January 18, 2005 03:59PM

clarification

Phil Burton January 18, 2005 04:50PM

Re: I need opinions on methods of defining ROIs (long)

Ziad S. Saad January 19, 2005 10:41AM

Re: I need opinions on methods of defining ROIs (long)

Daniel Glen January 19, 2005 12:37PM

Thanks to both of you, and one more quick question.

Phil Burton January 19, 2005 05:53PM

Re: Thanks to both of you, and one more quick question.

Jed Meltzer January 20, 2005 05:10PM

Re: I need opinions on methods of defining ROIs (long)

Rutvik Desai January 21, 2005 01:12PM

Re: I need opinions on methods of defining ROIs (long)

Min Bao December 04, 2005 02:30AM