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--- biac:scanners [2020/12/29 12:45]
jel76
+++ biac:scanners [2023/02/23 18:43] (current)
@@ Line 16: / Line 16: @@
 The current software platform on BIAC6 is 23x (3/6/13).
-=====Retired Scanners=====
+==== Bruker 7T Scanner ====
+The 7.0 T animal scanner was delivered in March 2006 and occupies a newly renovated 1500 sq-ft suite. It is equipped with a 33 cm high-power gradient system at 250 mT/m strength necessary for high-resolution imaging. Similar to our human scanners, it comes with parallel imaging capability through four channels (upgradeable to eight). Also, high-order shimming controls are used to ensure a homogeneous magnetic field. In addition, it has two broadband transmission channels and proton de-coupler for multi-nuclei MR spectroscopy scans. The scanner is controlled by a Linux workstation, which is connected via a high-speed network interface.
+=====Retired Equipment=====
 ==== GE EXCITE HD 3T Scanner (BIAC3 - Retired 9/6/2012) ====
@@ Line 23: / Line 26: @@
 The current software platform is 12xM4 (2/10/2010).
-==== Bruker 7T Scanner ====
+==== Whisperrooms ====
-The 7.0 T animal scanner was delivered in March 2006 and occupies a newly renovated 1500 sq-ft suite. It is equipped with a 33 cm high-power gradient system at 250 mT/m strength necessary for high-resolution imaging. Similar to our human scanners, it comes with parallel imaging capability through four channels (upgradeable to eight). Also, high-order shimming controls are used to ensure a homogeneous magnetic field. In addition, it has two broadband transmission channels and proton de-coupler for multi-nuclei MR spectroscopy scans. The scanner is controlled by a Linux workstation, which is connected via a high-speed network interface.
+The BIAC has installed two Whisperroom sound-attenuating chambers (http://www.whisperroom.com/). These rooms are equipped with networked computers and 8 channel button boxes, identical to those used at the scanner. They are ideal for testing experimental paradigms and conducting behavioral studies.  As they are located in close proximity to our MRI scanners, they are also often used for pre-scan training and post-scan testing.
 ===== Mock Scanner =====
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 ===== Quality Assurance (QA) =====
 BIAC routinely collects quality assurance data using AGAR phantoms on both 3T scanners. The goal is to collect this data on each scanner daily. At a minimum, it should be collected a few times per week. This data allows us to evaluate the scanners SNR and SFNR values, which in turn allow us to closely monitor scanner performance and quickly identify and diagnose problems. QA analysis tools also provide figures of merit for the mean signal, standard deviations, and signal stability in the X, Y, and Z planes.  The QA tools BIAC has implemented with the support of the [[http://www.birncommunity.org/|fBIRN]] are described (and can be downloaded) here: https://xwiki.nbirn.org:8443/bin/view/Function-BIRN/AutomatedQA
+A history of regular QA can be seen here : [[https://shadow.biac.duke.edu/petty/biac-qa/|BIAC-QA]]
 In addition to BIAC's QA procedures, GE also runs a quality control program every month called ibis. This program monitors, and adjusts if necessary X, Y, and Z gradient shimming (LVshim). The GE system performance tests checks and logs stability and SNR data on the scanner, which can be recalled from the scanner's service browser. These procedures also test for coherent noise and eddy current problems.
@@ Line 36: / Line 42: @@
 Finally, for every scanning session, BIAC collects data on the SNR, SFNR, standard deviation, drift, mean signal, first time point of data (t1), and provides plots of signal stability in the X, Y , and Z planes (plot). These data are available to investigators immediately after the data has been collected and reconstructed. These can be found by logging into the BIAC Exam Tracker here: http://shadow.biac.duke.edu/biacweb/dashboard/ or here: http://www.biac.duke.edu/services/
-===== Cluster =====
-BIAC's new Linux cluster has 51 nodes with a total of 456 Intel Xeon processor cores and 1.75 TB of memory. The cluster is based on Scientific Linux 6.4 and is running the Sun Grid Engine for job scheduling. BIAC maintains a large library of commercial and custom software for functional and structural MRI analysis, for the analysis of MR spectroscopy data, and for fiber tractography from DTIs. Available processing and analysis software include current releases of FSL, freesurfer, matlab (with: BIAC's matlab tools, spm8, ArtRepair), support vector libraries (liblinear, libsvm) , python tools (python-mvpa, numpy, ipython, pynifti), afni, dicom-toolkit. A full list of software can be seen at the cluster [[biac:cluster:packages]] page.
-Centralized data storage is provided by a BlueArc Titan 2500 enterprise-class storage server with Fibre Channel disk arrays and dual 10 Gigabit Ethernet connections. The Titan is supplemented by several HP ProLiant and Western Scientific FusionSA servers. Total storage capacity is 120 TB. Automated processes move the image data directly from the scanners and organize the data into a hierarchy on the storage servers. For archiving and backing up data, BIAC has a Qualstar RLS-4470 tape robot equipped with dual AIT-5 drives, 70 slots, and 28 TB native capacity. The central computation and storage systems can be accessed from the campus network, or from two data analysis laboratories located within the BIAC and available to all users.

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