Simon Fraser University

Lab Resources

On This Page

  1. MEG Resources
  2. MRI Resources
  3. MRI Visualization Software

MEG Resources

ImageTech Lab has a variety of MEG resources, including a 306-channel TRIUX™ neo MEGIN MEG system with 64-channel EEG and stimuli equipment

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  • 306-channel TRIUX™ neo MEGIN MEG system
    • Whole head SQUID sensor array - 204 planar gradiometers and 102 magnetometers
    • 1-5 kHz sampling rate
    • Seated, reclined or supine patient positioning options
    • Versatile options for pediatric or patient populations
    • Zero helium boil-off recycling
  • Video monitoring system
  • Noise suppression and head movement compensation technology
  • 64-channel integrated EEG
  • Polhemus™ Fastrak 3D digitization system
  • Vacuumschmelze® AK3B magnetically shielded room (2 layers of mu metal and 1 layer of aluminum)

MEG Lab access

ImageTech's MEG resources can be booked by researchers for both grant-funded studies and private or industry-sponsored research.

Lab access

306-channel whole-head system

Stimuli

Audio

Etymotic Research ER-3A Stereo audio transducers

Visual

Sony VPL-FHZ80 LCD Laser Projector with visual display screen

Somatosensory—electrical

Digimeter™ DS7A

Somatosensory—tactile

Up to four finger- or lip-mounted pneumatic actuators

Response devices

Optically connected Lumina response pad (four-button) from Cedrus®

Software

  • MEGIN Acquisition and Analysis software
  • Presentation stimulus software from Neurobehavioral Systems
  • MATLAB

MRI Resources

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  • Philips Ingenia CX 3T whole body MRI scanner (shown in page banner)
    • Bore diameter: 60cm
    • Quasar dual gradients: Gmax 80mT, max slew-rate 200T/m/s
    • Software version: 5.7.1.3
    • DDAS system (with MultiBand SENSE)

MRI Lab access

ImageTech's MRI resources can be booked by researchers for both grant-funded studies and private or industry-sponsored research.

Lab access

RF coils

Head 32-channel coil

Foot/ankle 8-channel coil

2x Flex M coil

Wrist 8-channel coil

T/R knee 16-channel coil

Head/neck 20-channel coil

Small extremity 8-channel coil

2x anterior (torso) coil

Audio-visual

  • MR compatible 32-inch LCD screen (for patient comfort and fMRI experiments)
  • Pair of standard Philips headphones

Stimulus input/output

Lumina (Cedrus) response box

Set left/right hand set response two button pads

Software (stimulus delivery)

  • NeuroBehaviouralSystems Presentation v 23.0, build 10.27.21
  • Mathworks Matlab 2021b

MRI Visualization Software

The following software are free to download and use.

3D Slicer

Software can import and export DIOM images along with NIFTI images. There are hundreds of extensions available to install. It also allows Python scripting with live introspection and interface scripting. However, even the basic package has great functionality built into it and enables 3D visualization with a default three orthogonal pane view.

3D Slicer

Available for Windows, MacOS and Linux

MIPAV

MIPAV is a great tool for basic visualization and image processing. It is also highly extensible, as one can write Java modules to incorporate into MIPAV. Another excellent feature of this tool is how simple it is to overlay one image ("image B") onto another image ("image A") and then change the transparency between the two. The interface is relatively clean and unobtrusive. 

MIPAV

ImageJ/FIJI

ImageJ can be used for a variety of image processing tasks, including image segmentation, image registration and image analysis. It also has a large library of plugins that can be used to extend its functionality. FIJI is a "batteries included" distribution of ImageJ that bundles a large number of plugins.

ImageJ

Fiji

ImageJ will run on any machine that has a Java Runtime Environment (Linux, MacOS and Windows)

MITK workbench

MITK (Medical Imaging Interaction Toolkit) is a free, open-source software for the development of interactive medical image processing software. It provides a wide range of functionality for image processing, visualization and analysis, including: filters, registration, segmentation and visualization.

MITK Workbench

MITK will run on Windows, Linux and MacOS

FSLEyes

FSLEyes is part of the FSL package. To use FSLEyes, the FSL package would typically have to be installed. FSLEyes is a 3D and 4D image viewer for neuroimaging data. It can load NIFTI, MGH, GIFTI, Freesurfer and VTK files. FSLeyes can be used to view functional MRI (fMRI) data, structural MRI data, and diffusion tensor imaging (DTI) data. It also has the ability to view FEAT analyses.

FSLEyes

FSLEyes will run on MacOS and Linux. There is more work required to get it to run on Windows (WSL)

ITK-SNAP

ITK-SNAP is a free and open-source software for medical image segmentation. It provides a set of tools to make segmentation of volumetric data easier and faster. SNAP is very good for image segmentation and provides tools for hand contouring and for cleaning up the results of automatic segmentation. It also has a powerful level set segmentation algorithm to segment anatomical structures in three dimensions. In addition to segmentation, ITK-SNAP also provides tools for image navigation, registration and post-processing. It supports a wide range of image formats, including NIfTI and DICOM.

ITK-SNAP

ITK-SNAP will run on Windows, MacOS and Linux

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