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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February 15, 2023 10:55AM
Hello AFNI team,

I have a simple (but crucial) question concerning 3drefit,
I received a dataset with incorrect header information (in particular L and R are FOR SURE reversed but not only).

Using 3dinfo the original orientation was LPI,

Using the command
3drefit -orient LSP -deoblique

I have now an image in the correct orientation for SI and PA, however, I still don't know if L and R are correct.
To do so, I checked if the right was still on right by modifying the right hemisphere (I added a sphere of "1") and then I applied the previous command

It appears that after this transformation the right sphere is on left (despite I didn't put RSP), which probably makes sense since I guessed, that inverting S and I has changed LR,
so my belief is that L and R are correctly oriented with

3drefit -orient LSP -deoblique

Am I right?
Subject Author Posted

3drefit -orient

Doughboys February 15, 2023 10:55AM

Re: 3drefit -orient

ptaylor February 15, 2023 11:47AM

Re: 3drefit -orient

Doughboys February 15, 2023 12:47PM

Re: 3drefit -orient

ptaylor February 15, 2023 01:43PM

Re: 3drefit -orient

Doughboys February 15, 2023 03:27PM

Re: 3drefit -orient

rick reynolds February 15, 2023 04:04PM

Re: 3drefit -orient

Doughboys February 20, 2023 08:32AM

Re: 3drefit -orient

Doughboys February 20, 2023 11:23AM

Re: 3drefit -orient

Doughboys February 20, 2023 12:13PM

Re: 3drefit -orient

ptaylor February 22, 2023 01:35PM

Re: 3drefit -orient

Doughboys February 23, 2023 12:03PM

Re: 3drefit -orient

ptaylor February 23, 2023 01:11PM