We are attempting to run resting state analysis using example 11 in the afni_proc_py page. We have generated the freesurfer output and imported it into afni format using @SUMA_Make_Spec_FS following which the vent & wm masks were created. However when we try to run the afni_proc_py script it throws an error
** ERROR (nifti_image_read): failed to find header file for ‘aparc.a2009s+aseg.nii’
** FATAL ERROR: no datasets found!
We tried converting the mgz files using 3dcopy as well but the error persists. We have scoured the forum but no one else seems to be facing the issue. We are attaching the proc file
There are a few things worth saying about that:
That dataset is not actually needed for the analysis, or any other part
of the afni_proc.py command (except for the correlation volume from
“-regress_make_corr_vols aeseg”, which is not needed, either). It is
merely there to put each subject’s FS atlas in the destination space.
So you do not need to include those datasets.
But they should be in the SUMA directory created by Make_Spec_FS.
Going to the SUMA directory, what is the output from:
ls -l aparc.a2009s*
Thanks for your help. We are updating the afni binaries to resolve the issues.
Currently I’m trying to extract the ALFF values from RSFC files. Could any one tell me the expected range of ALFF values for resting state so that I can cross check (e.g.: if I use amygdala of size 10mm as a mask).
I also wanted to know the procedure of extracting the ALFF values using masks from functional images.
Any help will be appreciated.