AFNI Message Board

History of AFNI updates  

|
June 07, 2021 04:41AM
Dear AFNI experts,

I have two datasets with a different acquisition slice order (tpattern). I would like to make sure that the slice timing correction with 3dTshift is well done.

1. First dataset.
TR=2 seconds
number of slices=35
slice order= Interleaved (1,3,5,7...35; 2,4,6,8...34).
Command used:

3dTshift  -tpattern Alt+z   -Fourier  -prefix s_001_stc.nii  s_001.nii



2. Second dataset.
TR=2 seconds
number of slices=37
slice order= Interleaved with jumps of 5 slices (1, 7, 13, 19, 25, 31, 37; 2, 8, 14, 20, 26, 32; 3, 9, 15, 21, 27, 33; 4, 10, 16, 22, 28, 34; 5, 11, 17, 23, 29, 35; 6, 12, 18, 24, 30, 36).
Command used:

3dTshift  -tpattern Alt+z   -Fourier  -prefix s_001_stc.nii  s_001.nii



I am using the exact same tpattern for both datasets. Is this correct considering that the second dataset has more interleaved "jumps"?
Is there a way to do a sanity check to know if the correction is well done?
Note: The to3d program considered both datasets as Alt+z.
Thanks in advance.

Kind regards,
Karel
Subject Author Posted

3dTshift 'tpattern' for an specific dataset

Karelo June 07, 2021 04:41AM

Re: 3dTshift 'tpattern' for an specific dataset

Peter Molfese June 07, 2021 09:50AM

Re: 3dTshift 'tpattern' for an specific dataset

Karelo June 07, 2021 12:35PM

Re: 3dTshift 'tpattern' for an specific dataset

Peter Molfese June 08, 2021 11:15AM



Sorry, only registered users may post in this forum.

Click here to login