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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Daniel Glen
October 30, 2008 05:10PM
Just to add to Rick's advice, there are a couple other choices for 'untalairaching.' 3dAllineate and 3dWarp both can invert the transformation of a single affine transformation like the one done by @auto_tlrc. For datasets that have been transformed by manual talairach transformation, you will have to use 3dfractionize for now. Each program has its own advantages. For example, 3dAllineate can transform multiple sub-bricks while 3dWarp is limited to a single sub-brick. Both 3dWarp and 3dAllineate transform the data much faster than 3dfractionize, but do not have the voting feature that is important if you are transforming multiple ROI datasets back to orig space.

Note if you don't know if a dataset has been auto-talairached or manually talairached, you can find that from the header with

3dAttribute WARP_DATA anat+tlrc

Auto-tlrc'ed data will produce 30 numbers while manually talairached data will produce 360 numbers.

3 ways to inverse talairach:

# 3dAllineate
cat_matvec -ONELINE anat+tlrc::WARP_DATA > tlrc.aff12.1D
3dAllineate -1Dmatrix_apply tlrc.aff12.1D -prefix invtlrc3dAl+orig -source anat+tlrc -master anat+orig

# 3dWarp
cat_matvec anat+tlrc::WARP_DATA > tlrc.1D
3dWarp -matvec_out2in tlrc.1D -prefix invtlrc_3dWarp+orig -gridset anat+orig anat+tlrc
3drefit -view orig invtlrc_3dWarp+tlrc.

# 3dfractionize - slow but useful voting option for multiple ROIs
3dfractionize -input anat+tlrc -warp anat+tlrc -preserve -prefix invtlrc_3dfrac -template anat+orig
Subject Author Posted

MNI Atlas tools

Anastasia Ford September 11, 2008 12:30PM

Re: MNI Atlas tools

rick reynolds September 11, 2008 02:10PM

Re: MNI Atlas tools

Anastasia Ford September 12, 2008 12:31PM

Re: MNI Atlas tools

rick reynolds September 12, 2008 01:10PM

Re: MNI Atlas tools

Anastasia Ford September 12, 2008 02:19PM

Re: MNI Atlas tools

rick reynolds September 12, 2008 02:47PM

Re: MNI Atlas tools

Anastasia Ford September 12, 2008 03:12PM

Re: MNI Atlas tools

rick reynolds September 12, 2008 04:21PM

Re: MNI Atlas tools

Anastasia Ford September 15, 2008 12:33PM

Re: MNI Atlas tools

Anastasia Ford September 15, 2008 01:19PM

Re: MNI Atlas tools

rick reynolds September 15, 2008 03:08PM

Re: MNI Atlas tools

Anastasia Ford September 16, 2008 12:40PM

Re: MNI Atlas tools

rick reynolds September 16, 2008 12:57PM

Re: MNI Atlas tools

Anastasia Ford September 18, 2008 12:11PM

Re: MNI Atlas tools

Kate Fissell October 30, 2008 02:25PM

Re: MNI Atlas tools

rick reynolds October 30, 2008 04:06PM

Re: MNI Atlas tools

Daniel Glen October 30, 2008 05:10PM

Re: MNI Atlas tools

Brent July 10, 2009 10:48AM

Re: MNI Atlas tools

Brent July 10, 2009 11:26AM

Re: MNI Atlas tools

Daniel Glen July 10, 2009 12:11PM

Re: MNI Atlas tools

Brent July 10, 2009 02:33PM