https://wiki.mrrc.pitt.edu/ 2026-06-04T20:23:26+00:00 https://wiki.mrrc.pitt.edu/ https://wiki.mrrc.pitt.edu/lib/exe/fetch.php?media=wiki:dokuwiki.svg text/html 2025-09-08T16:42:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:computation&rev=1757349774&do=diff Computation Resources External * The Center for Research Computing offers Pitt faculty accounts with 5Tb of storage, 50,000 SLURM service units, and unlimited sponsored accounts: <https://crc.pitt.edu/requesting-new-account>. See this wiki's CRC page. * Pittsburgh Super Computer (PSC) offers startup grants. Apply to bridges-2: text/html 2025-09-08T17:21:07+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:crc&rev=1757352067&do=diff CRC The Center for Research Computing and Data (<https://crc.pitt.edu>) provides a high performance computing cluster with secure shell access on htc.crc.pitt.edu. Authenticate with UPitt credentials. Pitt faculty can request accounts with 5Tb of storage, 50,000 SLURM service units, and unlimited sponsored accounts. text/html 2025-04-03T18:09:42+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:filesystem&rev=1743703782&do=diff MRRC MR Data Filesystem (gyrus) Secure shell accounts on cortex can access the gyrus hosted filesystem exported as /disks/mace2/scan_data. This is useful for advance users to sync MRRC data with a local directory using rsync. text/html 2025-09-26T14:20:40+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:flywheel&rev=1758896440&do=diff Flywheel * Flywheel Login * Flywheel Gears gearrules * FW App: ITK-SNAP Noteworthy technical (Flywheel (IT)) pages * Flywheel Development * F5 * Flywheel Infrastructure * Reaper Debugging * Flyhweel Issues Log text/html 2025-07-27T20:14:42+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:phi_burnin&rev=1753647282&do=diff PHI Pixel Burn In Some acquisitions write identifiable patient data (protected health information) as text in the pixels of the data. A simple strategy for removing this is to draw a black box where the text will be in the image. <https://github.com/NPACore/fw-redact-move> has deid.yaml working for swallow project in flywheel with the text/html 2025-09-08T16:08:30+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:phi&rev=1757347710&do=diff Protected Health Information (PHI) For data going to CRC, not HIPAA compliant. Don't include PHI in the raw data. Date of Birth (DOB) HIPAA considers birthday's to be PHI. However, birth year is not. If some birth information will be useful, consider recording birthday with birth year only. text/html 2025-07-27T20:14:42+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:qa&rev=1753647282&do=diff QA Overview Quality assurance policies are important for monitoring the consistency and reliability of MRRC equipment. We have several QA policies: * Daily Phantom QC for fMRI - A daily scanner QA scan and analysis pipeline in Flywheel to monitor important EPI scanning metrics. text/html 2025-09-26T15:19:52+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:reproin&rev=1758899992&do=diff ReproIn In early 2025, the MRRC adopted the ReproIn naming convention for all new studies. This standard makes automation pipelines easier and is necessary for our pilot test of Flywheel. Will F and the NPAC made a web app to help select ReproIn compatible sequence names. text/html 2025-07-27T20:14:42+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:retention&rev=1753647282&do=diff MRRC MR Data Retention Data from the Scanners is held for 3-5 years on XNAT. Sessions on gyrus are archived when storage is full, about once a year. Older data *may* be available on tape. text/html 2025-04-03T18:10:32+00:00 Anonymous (anonymous@undisclosed.example.com) https://wiki.mrrc.pitt.edu/doku.php?id=data:xnat&rev=1743703832&do=diff XNAT at the MRRC The MRRC self-hosts the open source imaging platform xnat at <https://xnat.mrrc.upmc.edu/>. Access requires a user account. For programmatically pulling data see XNAT data syncing.