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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Philipp
December 13, 2022 10:23AM
This is the output of the code that you provided for the raw functional scan: 

N-1 header file 'task-eoec_bold.nii.gz', num_fields = 1
  name                offset  nvals  values
  ------------------- ------  -----  ------
  pixdim                76      8    -1.0 3.203125 3.203125 3.2 0.0 0.0 0.0 0.0

And this is the output of 3dinfo for the exact same file: 

Identifier Code: NII_gdAWnoolfeS8ElHNF-3QOA  Creation Date: Tue Dec 13 16:27:35 2022
Template Space:  ORIG
Dataset Type:    Echo Planar (-epan)
Byte Order:      LSB_FIRST {assumed} [this CPU native = LSB_FIRST]
Storage Mode:    NIFTI
Storage Space:   179,806,208 (180 million) bytes
Geometry String: "MATRIX(3.203125,-3.20312e-16,2.182395e-16,-101.9189,-3.20312e-16,-2.342617,2.182395,25.05877,0,2.184526,2.340332,-116.7211):64,64,47"
Data Axes Tilt:  Oblique (43.000 deg. from plumb)
Data Axes Approximate Orientation:
  first  (x) = Right-to-Left
  second (y) = Posterior-to-Anterior
  third  (z) = Inferior-to-Superior   [-orient RPI]
R-to-L extent:  -101.919 [R] -to-    99.878 [L] -step-     3.203 mm [ 64 voxels]
A-to-P extent:  -176.738 [A] -to-    25.059 [P] -step-     3.203 mm [ 64 voxels]
I-to-S extent:  -116.721  -to-    30.479 [S] -step-     3.200 mm [ 47 voxels]
Number of time steps = 467  Time step = 1.00000s  Origin = 0.00000s
  -- At sub-brick #0 '?' datum type is short
  -- At sub-brick #1 '?' datum type is short
  -- At sub-brick #2 '?' datum type is short
** For info on all 467 sub-bricks, use '3dinfo -verb' **



Edited 1 time(s). Last edit at 12/13/2022 10:28AM by Philipp.
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Subject Author Posted

TR differs in nifti and header (and other info)

ptaylor December 13, 2022 07:16AM

Re: How to improve 3drefit’s deoblique results?

Philipp December 13, 2022 07:22AM

Re: How to improve 3drefit’s deoblique results?

ptaylor December 13, 2022 08:27AM

Re: How to improve 3drefit’s deoblique results?

Philipp December 13, 2022 10:23AM

Re: How to improve 3drefit’s deoblique results?

rick reynolds December 13, 2022 10:34AM

Re: How to improve 3drefit’s deoblique results?

Philipp December 13, 2022 10:37AM

Re: How to improve 3drefit’s deoblique results?

rick reynolds December 13, 2022 01:35PM