https://lncd.pitt.edu/wiki/ 2026-05-16T03:47:36+00:00 https://lncd.pitt.edu/wiki/ https://lncd.pitt.edu/wiki/lib/exe/fetch.php?media=wiki:dokuwiki.svg text/html 2025-05-16T16:48:49+00:00 Anonymous (anonymous@undisclosed.example.com) https://lncd.pitt.edu/wiki/doku.php?id=grants:7t:mr:anat&rev=1747414129&do=diff 7T Anatomical Acquisitions Acquisition The default anatomical acquisition for the 7T study is the calculated MP2RAGE UNI DEN (unified denoised, from 2 separate T1inv, see MP2RAGE). But, in the middle of the study, the acquisition protocol was failing. So we collected a standard T1w mprage. text/html 2025-10-21T20:23:36+00:00 Anonymous (anonymous@undisclosed.example.com) https://lncd.pitt.edu/wiki/doku.php?id=grants:7t:mr:freesurfer&rev=1761078216&do=diff Freesurfer for BrainMechR01 (7T) As of 2025-04-01 freesurfer has been run at least 3 times on the Brain Mechanisms R01 (7T)'s 7T Anatomical Acquisitions data. Due to scanner stability issues, not every visit has a higher quality MP2RAGE (+UNICORT) acquisition. Some visits only have the safer-for-the-scanner faster/lower quality text/html 2026-03-25T19:58:06+00:00 Anonymous (anonymous@undisclosed.example.com) https://lncd.pitt.edu/wiki/doku.php?id=grants:7t:mr:qc&rev=1774468686&do=diff 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 LNCD Tools's 4dConcatSubBrik ) T1w skull strips warped to mni for (all) original, mp2rage denoised (via Val!), and only mprage (7T_brainwarp_40mprage-only.nii.gz) * ideal for text/html 2024-11-17T18:05:17+00:00 Anonymous (anonymous@undisclosed.example.com) https://lncd.pitt.edu/wiki/doku.php?id=grants:7t:mr:rest&rev=1731866717&do=diff 7T Resting State fMRI Resting State Parameters 2x2x2mm3, 220 volumes, 2.18-2.23s TR 3dinfo -ad3 -n4 /Volumes/Hera/Raw/BIDS/7TBrainMech/sub-10129/20180917/func/sub-10129_task-rest_run-01_bold.nii.gz 2.040816 2.040816 1.999999 98 98 48 220 3dinfo -tr /Volumes/Hera/preproc/7TBrainMech_rest/MHRest_nost_ica/10129_20180917/brnaswdkm_func_4.nii.gz 2.180000