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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bob cox
February 10, 2003 08:49AM
It is usually the case that the anatomical dataset (SPGR or MPGRAGE) has thinner slices than the EPI dataset from which the functional maps are derived. It is also usually the case that the in-slice EPI voxels are larger than the in-slice anatomical MRI voxels. This means that as you scroll through the anatomical voxels one-by-one (in any direction), you will be in the same EPI/functional voxel for several scrolling steps.

To see this relationship precisely, turn on the "Datamode->Misc->Voxel Coords?" button, and turn on "See Function". Then the coordinates shown in the upper-left corner of the AFNI controller will be voxel indexes, rather than spatial coordinates in mm, and the voxel indexes from both the anat and functional datasets will be displayed. As you move around the anat 1 voxel/slice at a time, you will see one of the anat indexes change, but the func indexes will only change occasionally, as you cross the border from one large EPI voxel to the next.

All of this is true in +orig coordinates. In a resampled dataset (+tlrc), the voxel dimensions will all usually be the same (1 mm). However, the functional datasets may still look blocky, since the default interpolation method for functional datasets is NN.

bob cox
Subject Author Posted

consecutive pixels question

mimi February 09, 2003 10:40AM

Re: consecutive pixels question

bob cox February 10, 2003 08:49AM

Re: more about consecutive pixels question

mimi February 10, 2003 02:38PM