ROI placement outputs to /Volumes/Hera/Projects/7TBrainMech/subjs/$ld8/slice_PFC/MRSI_roi/$atlas/$initials
where
$ld8 is 5 digit luna id _ 8 digit session date$atlas is 13MP20200207$initials are an identify for who placed these coordinageThis looks like:
/Volumes/Hera/Projects/7TBrainMech/subjs/10129_20180917/slice_PFC/MRSI_roi/13MP20200207/MP
We may have more than one set of ROI placements. We pick one of them. Those coordinates that are passed on to LC Model and then included in 7T Data: merge_7t.csv.
The final coordinate placement is annotated as a symbolic link /Volumes/Hera/Projects/7TBrainMech/subjs/10129_20180917/slice_PFC/MRSI_roi/LCModel/v2idxfix/13MP20200207_picked_coords.txt
readlink /Volumes/Hera/Projects/7TBrainMech/subjs/1*_2*/slice_PFC/MRSI_roi/LCModel/v2idxfix/13MP20200207_picked_coords.txt | sed s/picked_cords.txt$/coords_mprage.nii.gz/g
| file | desc |
|---|---|
coords_mprage.nii.gz | slice pfc cubes affine transformed to match anatomical |
blob-mni.nii.gz | |
cmsphere-mni_labeled.txt | |
cmsphere-mni.nii.gz | |
coords_rearranged.txt | |
coords_slicespace.nii.gz | |
fs_gmmask_mprage.nii.gz | |
fs_gmmask.nii.gz | |
mni_coords_nolabels.txt | |
mni_coords_RAI.txt | |
mni_icbm152_t1_tal_nlin_asym_09c_brain_2mm.nii | |
mprage.nii.gz | |
mprage_warp_linear.nii.gz | |
picked_coords.txt | |
roi_percent_cnt_13MP20200207.txt | |
rorig.nii | |
slice_to_mprage.mat |