====== 7T MR Quality Check ======

===== T1w Warps =====

  * annotations: https://pitt-my.sharepoint.com/:x:/g/personal/foran_pitt_edu/Ef-YdXhtcUVGsi0go0i1JoMBdPGYgzq1_z3Y5Y8wfvsVkQ?e=uyr3bl
  * concatenated visit-per-volume (via [[:tools:lncdtools]]'s ''4dConcatSubBrik'' ((see ''[[https://github.com/LabNeuroCogDevel/7TBrainMech_scripts/blob/master/mri/Makefile|scripts/mri/Makefile]]'' <code>4dConcatSubBriks -o $@ -- `stat -c "%N" subjs/1*_2*[0-9]/preproc/rest-ica_dencor-maybe|grep -v DenCrct|ld8|sort -u| xargs printf /Volumes/Hera/preproc/7TBrainMech_rest/MHT1_2mm/%s/mprage_nonlinear_warp_MNI_2mm_bet.nii.gz' '`</code>)) ) T1w skull strips warped to mni for (all) original, mp2rage denoised (via Val!), and only mprage (''7T_brainwarp_40mprage-only.nii.gz'') 
  * ideal for [[:tools:afni]] graph view play through.
<code>
afni /Volumes/Hera/Projects/7TBrainMech/7T_brainwarp_40mprage-only.nii.gz\
    /opt/ni_tools/standard/mni_icbm152_nlin_asym_09c/mni_icbm152_t1_tal_nlin_asym_09c.nii
</code>
{{:grants:7t:mr:pasted:20240229-094600.png}}