7T MRSI PFC Files
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
is13MP20200207
$initials
are an identify for who placed these coordinage
This looks like:
/Volumes/Hera/Projects/7TBrainMech/subjs/10129_20180917/slice_PFC/MRSI_roi/13MP20200207/MP
Finding the chosen
We may have more than one set of ROI placements. We pick one of them. Those coordinates that are passed on to LC Model and then included in 7T Data: merge_7t.csv.
The final coordinate placement is annotated as a symbolic link /Volumes/Hera/Projects/7TBrainMech/subjs/10129_20180917/slice_PFC/MRSI_roi/LCModel/v2idxfix/13MP20200207_picked_coords.txt
readlink /Volumes/Hera/Projects/7TBrainMech/subjs/1*_2*/slice_PFC/MRSI_roi/LCModel/v2idxfix/13MP20200207_picked_coords.txt | sed s/picked_cords.txt$/coords_mprage.nii.gz/g
Files
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 |