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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March 14, 2018 06:32PM
Hi AFNI experts,
My fMRI data were acquired with 26 slices in descending sequence. I used the code below for timing correction before:
3dTshift -tpattern seq-z -quintic -prefix pb01.sub1.r01.tshift pb00.sub1.r01.tcat+orig
Now I need report the timing correction parameters in my manuscript. But I am not sure what is the reference slice used in my code.I have checked the usage of 3dTshift and found two options are designed for setting the reference slice. But one of them has no default reference and I don't know which option is used in the default state.
So I need help from you.
Thank you!
Yu



Edited 3 time(s). Last edit at 03/14/2018 07:24PM by Zhang Yu.
Subject Author Posted

What is the reference slice in my 3dTshift code?

Zhang Yu March 14, 2018 06:32PM

Re: What is the reference slice in my 3dTshift code?

Peter Molfese March 15, 2018 05:20AM

Re: What is the reference slice in my 3dTshift code?

Zhang Yu March 15, 2018 05:43AM

Re: What is the reference slice in my 3dTshift code?

Peter Molfese March 15, 2018 05:15PM

Re: What is the reference slice in my 3dTshift code?

Zhang Yu October 13, 2018 03:18PM

Re: What is the reference slice in my 3dTshift code?

rick reynolds October 21, 2018 08:31PM