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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Charles
November 30, 2020 04:56PM
Thanks, Paul.

So, I'm using the below code, but the program ends with an error. I think I'm making an error with the freq maps...but not sure. In the following, 16_FieldMap.nii is the phase file I get from the scanner and 15_FieldMap.nii is one of the magnitude files. Do I need to alter the phase file or is putting the -scale_freq doing this for me?

epi_b0_correct.py \
-epi_pe_echo_sp 0.00031 \
-epi_pe_dir AP \
-scale_freq 0.311785 \
-in_freq 16_FieldMap.nii \
-do_recenter_freq MEAN \
-in_magn 15_FieldMap.nii \
-in_epi sub-055_ses-01_task-rest_bold.nii \
-prefix b0_corr

Thanks again. --C
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Subject Author Posted

RE: field map

Charles November 30, 2020 02:21PM

Re: RE: field map

ptaylor November 30, 2020 03:37PM

Re: RE: field map

Charles November 30, 2020 04:56PM

Re: RE: field map

ptaylor November 30, 2020 05:57PM

Re: RE: field map

Charles November 30, 2020 06:10PM

Re: RE: field map

ptaylor November 30, 2020 09:38PM

Re: RE: field map

Charles December 01, 2020 04:51PM

Re: RE: field map

ptaylor December 01, 2020 06:54PM