All the Edinburgh Imaging software tools
Freely available, downloadable software, mostly developed locally by Edinburgh Imaging.
Anonymization of DICOM images: DICOM Confidential software tool
- An open source JAVA DICOM de-identification toolkit
- Authors: Dr Jano van Hemert, Dr Dominic Job, & David Rodriguez
Brain imaging of normal subjects (BRAINS) software tool
- Age-specific MR atlases from young adults to the very elderly (v1.0)
- Authors: Dr DA Dickie, Dr D Job, Dr M Valdés-Hernández, Prof JM Wardlaw
Digital human brain atlases software tool
- Collection in Edinburgh Datashare
- Authors: Michael R. Jackson, Dr Maria Valdés-Hernández
Dynamic contrast enhanced magnetic resonance (DCE-MR) software tool
Electro-encephalography (EEG) statistical analysis software tool
- LIMO EEG toolbox: for statistical analysis of EEG data across the whole dataspace (EEGLAB compatible)
- Authors: Nicolas Chauveau, Dr Cyril Pernet, Guillaume Rousselet
Functional MR (fMRI): adaptive thresholding software tools
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Authors: Dr Cyril Pernet, Chris Filo Gorgolewski
Mapping T1 software tool
Mapping T1 (volumetric) software tool
Reference segmentations software tool
- Collection Derived data from ADNI
- Authors: Leonora Fatimah Agan, Dr Maria Valdés-Hernández, Dr Cyril Pernet, Stuart Reid
Robust correlation software tools
The Robust Correlation Toolbox is a free collection of MATLAB functions allowing:
- Visualization of data in univariate & bivariate space
- Checking assumptions of normality & homoscedasticity
- Computation of Pearson's & Spearman's coefficients, percentage bend & skipped correlations with bootstrapped confidence intervals
- Author: Dr Cyril Pernet
Segmentation of brain tissues & lesions software tool
Segmentation of microbleeds & mineral deposits software tool
- Authors: Dr Maria Valdés-Hernández
Segmentation of mineral deposits in MR brain volumes software tool
- Author: Dr Andreas Glatz
Tissue irregularity map software tool
- Authors: Dr Maria Valdés-Hernández, Taku Komura & Febrian M. Rachmadi
Vascular assessment & measurement platform for images of the retina (VAMPIRE) – analysis software
- Semi-automatic software to measure fundus images (fundus camera, SLO & Optos ultra-widefield SLO) are also available.
- For further info, please contact:
Dr Tom MacGillivray
Senior Research Fellow & Image Analysis Core Laboratory Manager
- Centre for Clinical Brain Sciences
- Clinical Research Imaging Centre
- Wellcome Trust Clinical Research Facility
Contact details
Vascular assessment & measurement platform for images of the retina (VAMPIRE) - annotation tools
Other tools (externally developed)
- BIANCA (Brain Intensity AbNormality Classification Algorithm) - for segmenting white matter hyperintensities
- FMRIB Software Library (FSL) - a comprehensive library of analysis tools for FMRI, MRI & DTI brain imaging data
- FreeSurfer Software Suite (Harvard)
- I Do Imaging – providing free medical imaging applications & resources; conversion programs, image analysis & volume rendering
- MATLAB - Guides, information & resources from UoE School of Engineering
- MNI Brain Atlases (McConnell Brain Imaging Centre)
- NITRC - Neuroimaging Tools
- PSMD - An advanced neuromaging marker for cerebral small vessel disease
- Statistical Parametric Mapping (SPM) UCL - this software package has been designed for the analysis of brain imaging data sequences