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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Mark Pinsk
February 13, 2004 03:58PM
Thanks Rich, I'm still having trouble....

so my anova output is an fbuc which contains (among other things), Contrast and t-stat sub-briks. Let's say I'm interested in working on my first contrast which is sub-brik 12 and its t-stat is sub-brik 13.

So I type:
3dclust -prefix output -1thresh 2.4475 0 4 'anova_output+orig[13]'

Where:
-1thresh 2.4475 is my t value corresponding to p<0.05
0 is the connectivity distance
4 is the minimum cluster size in microliters

I get a text output to my screen listing all the clusters that pass the criteria, and I get a message that says ++Writing dataset ./output+orig.HEAD, but an output file never get created for some reason. What am I missing?
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Subject Author Posted

masking out stray voxels

Mark Pinsk February 12, 2004 12:59PM

Re: masking out stray voxels

Rich Hammett February 12, 2004 04:38PM

Re: masking out stray voxels

Mark Pinsk February 13, 2004 03:58PM

Re: masking out stray voxels

Mark Pinsk February 16, 2004 01:49PM