Imaging rating tool, protocols and repository, software tools, and radiology review tools. Freely available, downloadable software, mostly developed locally at the University of Edinburgh Ageing Brain Normal Ageing Brain Rating Tools Document Ageing Brain Template (129.94 KB / PDF) Document Atrophy Ranking (179.47 KB / PDF) Document Ageing Brain Paper (316.36 KB / PDF) Document Normal Ageing Brain template (999.38 KB / PDF) Brain Imaging of Normal Subjects (BRAINS) software tool Document Age-specific MR atlases from young adults to the very elderly (475.45 KB / PDF) Human brain atlases across the lifespan – Anatomical Segmentations, 1990-2016 [dataset]https://datashare.ed.ac.uk/handle/10283/3890 Computational Image Analysis Segmentation of brain tissue: image processing methodsDocumentALFA - Algorithm for MRI neonatal brain extraction MRBrainS Challenge paper Segmentation of brain tissues & lesions software toolA multispectral method for segmentation of brain tissues & lesions, developed for the BRIC1936 study Segmentation of microbleeds & mineral deposits software tool Document Guidelines for segmentation of microbleeds & mineral deposits (482.92 KB / PDF) Segmentation of mineral deposits in MR brain volumes software tool https://github.com/aglatz/mineral-deposit-segmentation-pipelineTissue irregularity map software tool https://github.com/febrianrachmadi/lots-iam-gpuReference segmentations software toolhttps://datashare.ed.ac.uk/handle/10283/2147Digital human brain atlases software toolhttps://datashare.ed.ac.uk/handle/10283/2215Brain imaging of normal subjects (BRAINS) software toolhttps://datashare.ed.ac.uk/handle/10283/1957 DICOM image anonymization: DICOM Confidential Downloadable DICOM image anonymization: DICOM Confidential software toolsAnonymization of DICOM images: DICOM Confidential software tool DICOM Confidential download | SourceForge.net Functional Imaging Functional MR (fMRI): adaptive thresholding software toolsMatlab ScriptsElectro-encephalography (EEG) statistical analysis software tool LIMO EEG toolbox: for statistical analysis of EEG data across the whole dataspace (EEGLAB compatible)Robust correlation software tools The Robust Correlation Toolbox is a free collection of MATLAB functions allowing:Visualization of data in univariate & bivariate spaceChecking assumptions of normality & homoscedasticityComputation of Pearson's & Spearman's coefficients, percentage bend & skipped correlations with bootstrapped confidence intervals Multi-centre Studies Multi-Centre StudiesEdinburgh Imaging publication on Guidelines & Practical Tips for accurate & reproducible imaging endpoints & data sharingMetrics for quality control of results from super-resolution machine-learning algorithms – Data extracted from publications in the period 2017- May 2021, 2017-2021 [dataset]https://datashare.ed.ac.uk/handle/10283/3933 Quantitative Magnetic Resonance Dynamic contrast enhanced magnetic resonance (DCE-MR) software toolPatlak modelling of subtle Blood Brain Barrier (BBB) leakageMapping T1 (volumetric) software toolDESPOT1-HIFI or variable flip angleMapping T1 software toolhttps://github.com/mjt320/SEPALhttps://github.com/mjt320Mapping T2/T2* software toolhttps://github.com/mjt320/T2Star Retinal Imaging inc. VAMPIRE OCTolyzerA fully automatic toolkit for segmentation and feature extracting in optical coherence tomography and scanning laser ophthalmoscopy datahttps://github.com/jaburke166/OCTolyzerSLOctolyzerA fully automatic analysis toolkit for segmentation and feature extracting in scanning laser ophthalmoscopy imageshttps://github.com/jaburke166/SLOctolyzerAutoMorphalyzerColour fundus photography analysis including vessel segmentation, artery and vein, optic disc and vascular feature analysishttps://github.com/jaburke166/AutoMorphalyzerVascular assessment & measurement platform for images of the retina (VAMPIRE) – analysis softwareSemi-automatic software to measure fundus images (fundus camera, SLO & Optos ultra-widefield SLO) are also available.For further info, please contact:Dr Tom MacGillivraySenior Research Fellow & Image Analysis Core Laboratory ManagerCentre for Clinical Brain SciencesClinical Research Imaging CentreWellcome Trust Clinical Research FacilityContact detailsWebsite: Profile on the University of EdinburghWebsite: Profile on Edinburgh Research ExplorerWebsite: Clinical Research Imaging Centre Image AnalysisWork: +44 (0)131 242 7756Email: T.J.MacGillivray@ed.ac.uk Small Vessel Disease inc. Lacunar Stroke Small Vessel Disease Imaging Evaluation Forms, including lacunar strokehttps://datashare.ed.ac.uk/handle/10283/9134 Microbleeds/Microhaemorrhages Brain observer microbleed scale (BOMBS) rating toolsDocumentBrain Observer Microbleed Scale (BOMBS) User Guide (1.85 MB / PDF)DocumentBrain Observer Microbleed Scale (BOMBS) Form (129.52 KB / PDF)DocumentDevelopment of BOMBS (523.25 KB / PDF)Segmentation of microbleeds & mineral deposits software toolDocumentGuidelines for segmentation of microbleeds & mineral deposits (482.92 KB / PDF) Perivascular Spaces Enlarged Perivascular Spaces (EPVS) rating toolsDocumentQuantifying Enlarge Perivascular Spaces (EPVS) (1.53 MB / PDF)Digital human brain atlases software toolhttps://datashare.ed.ac.uk/handle/10283/2216 White Matter Lesions (WML) White matter lesion (WML) rating toolsDocument20 MR scans with ratings (2.1 MB / PDF)DocumentWML Rating Scales Recording Sheet (4.39 KB / PDF)DocumentLongstreth Rating Tool (430.48 KB / PDF)DocumentFazekas Scale (251.85 KB / PDF)DocumentWahlund Rating Scale (287.57 KB / PDF)DocumentPrins Rating Scale (49.68 KB / PDF) Segmentation of brain tissues & lesions software toolA multispectral method for segmentation of brain tissues & lesions, developed for the BRIC1936 studyTissue irregularity map software tool https://github.com/febrianrachmadi/lots-iam-gpuReference segmentations software toolhttps://datashare.ed.ac.uk/handle/10283/2147Digital human brain atlases software toolhttps://datashare.ed.ac.uk/handle/10283/2215Brain imaging of normal subjects (BRAINS) software toolhttps://datashare.ed.ac.uk/handle/10283/1957Inferior Frontal Sulcal Hyperintensity (IFSH) Scale: user guide & related templatehttps://data.mendeley.com/datasets/wh4dgpswgc/1White matter hyperintensities evolution patterns 1 year post-lacunar stroke & their association with post-stroke cognition, 2009-2013 [dataset] https://datashare.ed.ac.uk/handle/10283/3934 Stroke Acute ischaemic stroke rating tools Document Acute Stroke Lesions Proforma (37.39 KB / PDF) Document CT and MR reading form (1.04 MB / PDF) Document CT Perfusion and Angiography form (1.16 MB / PDF) Document MRI Perfusion and Angiography studies reading form (808.18 KB / PDF) Stroke and Small Vessel Disease Imaging Evaluation Formshttps://datashare.ed.ac.uk/handle/10283/9134White matter hyperintensities evolution patterns 1 year post-lacunar stroke & their association with post-stroke cognition, 2009-2013 [dataset] https://datashare.ed.ac.uk/handle/10283/3934Systematic Review & Meta-Analysis on incidence & risk of stroke in individuals with long-term exposure to air pollutants, [dataset]https://datashare.ed.ac.uk/handle/10283/3932 This article was published on 2025-07-21
