SOFTWARE

We have experience in the following software packages for imaging and statistical analysis: AFNI, BrainVoyager, FreeSurfer, FSL, Hermes, MatLab, Medcon, MRIcro, SPM and Statistica. If you wish to evaluate images using any of these methods, please don't hesitate to contact us!

SOFTWARE LINKS

AFNI

AFNI is a set of C programs for processing, analyzing and displaying functional MRI (fMRI) data - a technique for mapping human brain activity.
http://afni.nimh.nih.gov/afni

BrainVoyager

BrainVoyager is a powerful fMRI analysis and visualization software.
http://www.brainvoyager.com

Compumedics NeuroScan

Compumedics NeuroScan is a world leading developer of software and hardware for EEG, ERPs, Source Localization and Functional Neuroimaging.
http://www.neuroscan.com
One of their products is CURRY, which is a software tool for electromagnetic source localization and visualization. CURRY integrates multiple, complementary image modalities with each other (EEG and MEG with MRI, FMRI, CT, PET or SPECT).
http://www.neuroscan.com/curry.cfm
For scheduled Neuroscan School Sessions, see http://www.neuroscan.com/school.cfm

FreeSurfer

FreeSurfer is a set of semi-automated tools for reconstruction of the brain’s cortical surface and overlay of functional data onto the reconstructed surface. http://surfer.nmr.mgh.harvard.edu/

FSL

FSL is a versatile and comprehensive library of functional and structural brain image analysis tools. FSL is written mainly by the FMRIB Analysis Group at the University of Oxford. http://www.fmrib.ox.ac.uk/fsl/

Hermes

Hermes medical solutions software provides comprehensive work packages for use in a wide variety of medical imaging. Individually customized programs can also be created within the Hermes environment.
http://www.hermesmedical.com

Matlab

Matlab by The MathWorks is a high-level language and interactive enironment that enables the user to perform computational tasks and easy plotting of data, among other things.
http://www.mathworks.com/products/matlab

MRIcro

MRIcro (by Chris Rorden) is a program that converts images to SPM-friendly Analyze format. It can also view images in many different formats, export images to BMP, JPEG, PNG or TIF, and much more.
http://www.sph.sc.edu/comd/rorden/mricro.html

SPM

Statistical Parametric Mapping (SPM) refers to the construction and assessment of spatially extended statistical processes used to test hypotheses about [neuro]imaging data from SPECT/PET and fMRI.
http://www.fil.ion.ucl.ac.uk/spm/
SPM documentation can be found at http://www.fil.ion.ucl.ac.uk/spm/dox.html#Papers
SPM is managed by the Wellcome Trust Centre for Neuroimaging at the University College of London. See http://www.fil.ion.ucl.ac.uk/

Statistica

Statistica provides a comprenhensive array of data analysis, data management and visualisation tools as well as data mining procedures. Its techniques include predictive modelling, clustering and classification.
http://www.statsoft.com/products/products.htm

HARDWARE

The Imagelab has a number of workstations that are free to use by researchers connected to SMILE. Nine powerful computers form the core of the SMILE system: two Hermes servers with three clients (all equipped with double XX inch screens), a Linux-server with two connected workstations and a PACS-station. An Ethernet RAID unit is available for backup, bringing the computer data storage up to approximately 9 TB at the moment. The computers are protected from the monthly power cut tests at Karolinska University Hospital Huddinge by several UPS:s. A full overview of the computers at SMILE can be found here.

Fast connections to the MR-cameras, to the division for medical physics at Huddinge, the PACS system and the MR-unit at Sabbatsberg hospital are in place, with the option to create new connections to other units as wanted. Through PACS all medical images made at the Karolinska University Hospital in Huddinge can be accessed and also sent to SMILE for processing. To access PACS an NT-account is needed (which can be obtained at the IT-department) as well as a PACS account, which is set up at the X-ray department.

Printing, copying, scanning and faxing can of course also be done at SMILE, and there are also two interim workspaces with network sockets available where visitors easily can connect their own laptops.