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  

|
ziad Saad
March 16, 2007 08:05AM
Hello AndreaB,

(I wrote this yesterday but for some reason the post did not get through)

There may be 30 anatomical regions but they're all covered with blobs and it is not appropriate to try to separate them up by geometrical edits of the cluster's shapes.

What you might want instead is a description of what regions of the brain these blobs overlap with. Enter 'whereami'. The option -bmask or -omask will give you the percentage of an ROI occupying a particular region defined by one of the atlases distributed with AFNI.

For example, for blob 1 you will get a report that might say:
whereami -omask YourROIs+tlrc.
...
++ Processing unique value of 1
++ 925 voxels in ROI
++ 925 voxels in atlas-resampled mask
Intersection of ROI (valued 1) with atlas TT_Daemon (sb0):
43.9 % overlap with Middle Occipital Gyrus, code 33
24.3 % overlap with Cuneus, code 40
10.8 % overlap with Posterior Cingulate, code 20
0.3 % overlap with Lingual Gyrus, code 32
-----
79.4 % of cluster accounted for

More info on slides 35-39 here:
[afni.nimh.nih.gov]


I hope this helps.

cheers,
-ziad
Subject Author Posted

breaking up large clusters

AndreaB March 15, 2007 01:58PM

Re: breaking up large clusters

Guofan March 15, 2007 04:22PM

Re: breaking up large clusters

David Perlman March 15, 2007 04:34PM

Re: breaking up large clusters

Rutvik Desai March 15, 2007 05:34PM

Re: breaking up large clusters

jill March 15, 2007 11:33PM

Re: breaking up large clusters

ziad Saad March 16, 2007 08:05AM

Re: breaking up large clusters

jinny August 06, 2008 06:07PM