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  

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July 12, 2005 02:59PM
Hello AFNI users,

I've run 3dclust on a dataset to detect clusters in the difference sub-brick between two groups.

3dclust -1thresh 2.581 -1dindex 4 -1tindex 5 6 422 dataset+orig

The cluster results look fine and correspond to the images as expected.

Next I decided to reduce the z-threshold to 1.965 (p>0.05) and increase the interclusterconnectivity distance (rmm) from 6 to 10 millimeters (voxel dimensions =3.75x3.75x6 ). This is so that rmm > 6*sqrt(2). Here is the command line -

3dclust -1thresh 1.965 -1dindex 4 -1tindex 5 10 422 dataset+orig

The first row of the output of 3dclust now shows a huge (compared to the rest) cluster (247388 microliters). Locating this on the images according to the coordinates listed takes me to an empty area without any activation.
This makes me wonder if there might be something fishy going on. The remaining cluster locations look fine on the images.

Is there something I'd be happy to upload a dataset if you'd like to take a look.
Your help is appreciated.

Thank you.
Mithun
Subject Author Posted

Weird 3dclust output?

Mithun Mukherjee July 12, 2005 02:59PM

Re: Weird 3dclust output?

Vince July 12, 2005 03:55PM

Re: Weird 3dclust output?

Mithun Mukherjee July 12, 2005 04:17PM

Re: Weird 3dclust output?

Robert Cox July 12, 2005 04:31PM

Re: Weird 3dclust output?

Mithun Mukherjee July 12, 2005 04:47PM

Re: Weird 3dclust output?

rick reynolds July 12, 2005 05:33PM

Re: Weird 3dclust output?

Mithun Mukherjee July 13, 2005 10:19AM

Re: Weird 3dclust output?

rick reynolds July 13, 2005 10:25AM

Re: Weird 3dclust output?

Mithun Mukherjee July 18, 2005 04:11PM

Re: Weird 3dclust output?

rick reynolds July 20, 2005 09:07AM

Re: Weird 3dclust output?

Mithun Mukherjee July 20, 2005 11:50AM

Re: Weird 3dclust output?

Mithun Mukherjee August 31, 2005 12:16PM