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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May 24, 2018 12:06PM
Here is the answer from TORTOISE folks if someone else needs:

Quote
The following instruction to run DRBUDDI is with the understanding that the PA volume is a b0. 1) Please open the PA b0 and create copy of that volume. 2) create a 4dnifti file from these two volumes. Create bvecs and bvals file for this which is essentially consists of zeroes (bvals row of 2 zeroes and bvecs will be 3x2 (RxC) zeroes). 3) import this PA b0.nii using import nifti in DIFFPREP. This will create a proc folder that consists of .list, .nii and .bmtxt for PA. 4) run diffprep on the AP data (you may run with to be drbuddied tag 1, to not write out the final steps). PA data can remain as is without any DIFFPREP processing. 5) now in DRBUDDI use AP_proc.list, PA.list and provide a structural image. Please also use the following tags: --n_dwis 0 and --final_signal_modulation LS 6) In DRBUDDI_proc the corrected AP and PA will be separated and not combined but the AP files would have used the information from PA b0 to correct for EPI distortions. Ideally it is good to have more bvalues in the blip down that can match the blip up but with one, some amount of correction is achievable. please check the results i.e AP_b0_corrected_final.nii with respect to the structural_used.nii file. You will have to use the AP_DRBUDDI corrected final.list file to compute the tensors.

Thank you
2086
Subject Author Posted

How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 May 02, 2018 10:20PM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 03, 2018 05:59AM

Re: How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 May 03, 2018 08:57AM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 03, 2018 01:03PM

Re: How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 May 04, 2018 04:33AM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 04, 2018 08:11AM

Re: How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 May 24, 2018 11:49AM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 30, 2018 09:38AM

Re: How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 May 25, 2018 12:58PM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 30, 2018 10:17AM

Re: How to correct DWI EPI distortion with only one b value PA volume? Attachments

EXP.2086 June 02, 2018 03:39AM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor June 03, 2018 01:50PM

Re: How to correct DWI EPI distortion with only one b value PA volume?

EXP.2086 May 24, 2018 12:06PM

Re: How to correct DWI EPI distortion with only one b value PA volume?

ptaylor May 30, 2018 10:18AM