Base Module Features

Project Creation

• Automatic assembling of images into 2D and 3D functional and anatomical multi-slice projects
• Supported data formats
  • Siemens IMA
  • GE
  • Philips
  • Bruker
  • ACR/NEMA
  • DICOM
  • ANALYZE

Data Preprocessing

• Inter-slice scan time correction (important for event-related fMRI)
• 2D and 3D motion detection and correction
• Spatial and temporal bandpass filtering in frequency space
• Gaussian smoothing in space/time domain
• Removal of linear and higher-order trends in time course data

Statistical Analysis

• Parametrical statistical mapping: Student's t-test, linear correlation, cross-correlation, multiple regression, General Linear Model (GLM)
• GLM contrasts (t-maps), model compansons (F-maps)
• Colour-coded relative contribution maps
• Factorial design builder, conjunction analysis, random effects analysis
• Cortex-based GLM, correction for serial correlations
• Cortex-based Independent Component Analysis (ICA)
• Cortex-based correction of multipie compansons
• Non-parametric statistical mapping: Kolmogorov-Smirnov test, rank-order correlation
• Region-of interest analysis tool
• Event-related fMRI analysis tools and display

Utility Functions & Visualization Tools

• Creation of stimulation protocols; graphical specification of statistical tests; condition-based segmentation and visualization of time course plots
• Simultaneous display of reference function and time course plot
• Protocol-based automatic generation of event-related averaging files
• Display of original data values or percent signal change
• Tabular output for ROI-based GLM analysis
• Loading and display of multiple statistical maps with appropriate map intersection colouring
• Interactive editing of look-up colour tables
• Labeling of anatomical and functional regions

Segmentation & Volumetry

• Automatic brain segmentation from 3D data sets using three-dimensional intensity inhomogeneity correction, Talairach templates, histogram analysis, and region growing
• Determination of the volume (mm³) of anatomical regions and functional clusters
• 3D filtering (e.g. Gaussian smoothing) in space or frequency domain

Volume Rendering

• Fast high-quality volume rendering with superimposed functional data
• 3D-2D mapping: direct mouse pointer reference between 3D rendering (e.g. gyri) and orthogonal slice viewing windows

Talairach Tools

• Interactive transformation of 3D data sets into Talairach space with visualization of full or partial Talairach grid and coordinates of a selected voxel or the center of gravity of a functional cluster
• Functional 4D time course data in Talairach space allowing: display of time courses of selected voxels or clusters; the computation of statistical 3D maps; inter-subject averaging of 3D anatomical data sets, 4D time courses and 3D statistical maps

Spatial Transformation & Registration

• Automatic co-registration of functional and anatomical data sets
• Rigid body 3D alignment, 3D motion correction
• Talairach transformation
• Tri-linear and sinc-interpolation
• Interactive multi-modal co-registration (MRI, fMRI, PET, EEG/MEG)

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