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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August 16, 2017 12:08AM
Hi Daniel,

I should have been more clear with my questions. I am pasting the steps again and the results with the respective units. Basically, my goal was to extract mean beta weights/percent signal changes from the bilateral, left, and right area 6 to double check if those masks are working well, that is, if the means from left + right equal the mean for the bilateral mask. I am trying to figure out why the mean for left + right is way larger than the mean extracted from just the bilateral mask. I feel I need to understand this so that I can trust my numbers. You mentioned above that an oblique dataset may complicate things.

whereami -mask_atlas_region CA_MPM_18_MNIA::Area_6 -prefix mask_B_6_ms 
whereami -mask_atlas_region CA_MPM_18_MNIA:left:Area_6 -prefix mask_L_6_ms 
whereami -mask_atlas_region CA_MPM_18_MNIA:right:Area_6 -prefix mask_R_6_ms 

3dfractionize -template stats.UK002+tlrc -input mask_B_6_ms+tlrc -prefix mask_B_6_ms_fr -vote -clip 0.2 

3dfractionize -template stats.UK002+tlrc -input mask_L_6_ms+tlrc -prefix mask_L_6_ms_fr -vote -clip 0.2 

3dfractionize -template stats.UK002+tlrc -input mask_R_6_ms+tlrc -prefix mask_R_6_ms_fr -vote -clip 0.2

3dROIstats -nzvoxles -sigma -mask mask_B_6_ms_fr+tlrc stats.UK002+tlrc > BOLD_UK002_mask_B_6_ms.txt 
3dROIstats -nzvoxles -sigma -mask mask_L_6_ms_fr+tlrc stats.UK002+tlrc > BOLD_UK002_mask_L_6_ms.txt 
3dROIstats -nzvoxles -sigma -mask mask_R_6_ms_fr+tlrc stats.UK002+tlrc > BOLD_UK002_mask_R_6_ms.txt

Side File Sub-brick Mean_1 NZcount_1 Sigma_1
Bilateral mask stats.UK002+tlrc 1[VNS#0] 0.574734 2017 0.959639
Left mask stats.UK002+tlrc 1[VNS#0] 0.712524 991 1.048822
Right mask stats.UK002+tlrc 1[VNS#0] 0.441979 1025 0.844782

Thanks,
Maria
Subject Author Posted

identifying left and right from results of multimask

Sabrina September 14, 2015 02:11PM

Re: identifying left and right from results of multimask

Daniel Glen September 14, 2015 02:54PM

Re: identifying left and right from results of multimask

Sabrina September 14, 2015 03:40PM

Re: identifying left and right from results of multimask

Sabrina September 15, 2015 09:28AM

Re: identifying left and right from results of multimask

Daniel Glen September 15, 2015 09:54AM

Re: identifying left and right from results of multimask

Sabrina September 15, 2015 01:55PM

Re: identifying left and right from results of multimask

Sabrina September 15, 2015 04:20PM

Re: identifying left and right from results of multimask

Daniel Glen September 16, 2015 04:32PM

Re: identifying left and right from results of multimask

maria August 11, 2017 02:31PM

Re: identifying left and right from results of multimask

Daniel Glen August 11, 2017 04:02PM

Re: identifying left and right from results of multimask

maria August 11, 2017 04:29PM

Re: identifying left and right from results of multimask

maria August 15, 2017 09:57AM

Re: identifying left and right from results of multimask

Daniel Glen August 15, 2017 11:31AM

Re: identifying left and right from results of multimask

maria August 16, 2017 12:08AM

Re: identifying left and right from results of multimask

Daniel Glen August 18, 2017 05:09PM

Re: identifying left and right from results of multimask

hpark January 13, 2016 03:57PM