3dmaskave_grp (source on github) is an abstracted version of 07_extract*.bash that saves a csv with columns like roimask,subjid,inputname,mean_val
It is in the default path on Rhea (linux server). See 3dmaskave_grp -help for complete reference.
The command takes any number of -mask arguments. Masks can just be a mask file (and the name column in the output will be a safe basename of that) or you can label the mask by prefacing with e.g. myroiname=a.
A call like
3dmaskave_grp -csv MPFC-ACC_1.csv \ -mask 'ACC=mvm/ACC_p2-16_cl40.nii.gz<1>' \ -mask 'ROI2=mvm/ACC_p2-16_cl40.nii.gz<2>' \ -mask 'mvm/ACC_p2-16_cl40.nii.gz<3>' \ -- /Volumes/Hera/Projects/7TBrainMech/subjs/101*/conn_mrsi_rest/mxcovsph/08-MPFC_deconreml-r.nii.gz
yields
grep -h 1012 MPFC-ACC_1.csv ACC,10129_20180917,08-MPFC_deconreml-r,0.219054 ROI2,10129_20180917,08-MPFC_deconreml-r,0.040569 ACC_p2_16_cl40_3,10129_20180917,08-MPFC_deconreml-r,-0.162038
You may also use an AFNI style 3dMVM/3dLME datatable to specify and label inputs.
3dmaskave_grp -datatable datatable.tsv -label_col 2,3 -csv myout.csv