Analysis of Functional NeuroImages
Resource Report
Resource Website
1000+ mentions
|
Analysis of Functional NeuroImages (RRID:SCR_005927)
|
AFNI
|
data processing software, source code, data analysis software, software resource, software application, data visualization software, software toolkit
|
Set of (mostly) C programs that run on X11+Unix-based platforms (Linux, Mac OS X, Solaris, etc.) for processing, analyzing, and displaying functional MRI (FMRI) data defined over 3D volumes and over 2D cortical surface meshes. AFNI is freely distributed as source code plus some precompiled binaries.
|
c program, unix, fmri, solaris, nifti-1 support, 2d surface analysis, 3d surface analysis, visualization
|
uses: Neuroimaging Data Model
is used by: 3dsvm
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is listed by: Biositemaps
is related to: BASH4RfMRI
has parent organization: National Institute of Mental Health
is parent organization of: Mapping Data to the Talairach Atlas
works with: NIAG Addiction Data
|
|
NIMH |
|
Free, Open Source, Runs on Linux, Runs on Mac OS |
|
nif-0000-00259 |
http://www.nitrc.org/projects/afni |
|
|
SCR_005927 |
AFNI NIfTI Server, AFNI and NIfTI Server |
2026-08-04 09:41:28 |
2107 |
Mapping Data to the Talairach Atlas
Resource Report
Resource Website
1+ mentions
|
Mapping Data to the Talairach Atlas (RRID:SCR_005284)
|
Mapping Data to the Talairach Atlas
|
data processing software, software application, image processing software, software resource
|
A sample script on how to map some numbers to brain regions, using the Talairach-Tournoux Atlas database. For example, put the value 0.379 in each hippocampus voxel, and the value 0.666 in each superior temporal gyrus voxel.
|
talairach, atlas, brain, label
|
has parent organization: Analysis of Functional NeuroImages
|
|
|
|
|
|
nlx_144320 |
|
|
|
SCR_005284 |
|
2026-08-04 09:41:20 |
8 |
BASH4RfMRI
Resource Report
Resource Website
|
BASH4RfMRI (RRID:SCR_005970)
|
|
software resource
|
THIS RESOURCE IS NO LONGER IN SERVICE, documented July 23, 2015. Of note: most functions have been integrated in 1000 Functional Connectomes Project (www.nitrc.org/projects/fcon_1000). This package is not updated, thus please visit 1000 Functional Connectomes Project site and download relevant bash scripts. BASH Scripts for a resting-state functional MRI study. The functions include seed-based correlation analysis, amplitude analysis and independent component analysis. Note: this tool is just a plug-in for FSL, AFNI and FreeSurfer. Thus, you need have them before you use BASH4RfMRI.
|
algorithm or reusable library, information theory, spectral analysis, correlation, multivariate analysis, platform or development environment, magnetic resonance
|
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
is related to: Analysis of Functional NeuroImages
is related to: FreeSurfer
is related to: 1000 Functional Connectomes Project
|
|
|
|
THIS RESOURCE IS NO LONGER IN SERVICE |
|
nlx_151343 |
|
|
|
SCR_005970 |
BASH Scripts, bash-rs-fcmri |
2026-08-01 12:03:04 |
0 |
NIAG Addiction Data
Resource Report
Resource Website
|
NIAG Addiction Data (RRID:SCR_015523)
|
|
data set, data or information resource
|
Data set of addiction studies compiled by the NeuroImaging and Analysis Group (NIAG).
|
addiction, neuroimaging, data set
|
works with: SPM
works with: DTIProcess ToolKit
works with: FreeSurfer
works with: Analysis of Functional NeuroImages
|
|
|
|
Open Source |
|
|
http://niag.ir/ |
|
|
SCR_015523 |
NeuroImaging and Analysis Group Addiction Data |
2026-08-04 09:43:40 |
0 |
Biositemaps
Resource Report
Resource Website
1+ mentions
|
Biositemaps (RRID:SCR_001976)
|
Biositemaps
|
software resource, service resource
|
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 27,2023. Biositemaps represent a mechanism for computational biologists and bio-informaticians to openly broadcast and retrieve meta-data about biomedical data, tools and services (i.e., biomedical resources) over the Internet. All Institutions with an interest in biomedical research can publish a biositemap.rdf file on their Internet site. The technology, developed by the Biositemaps Working Group of the NIH Roadmap National Centers of Biomedical Computing (NCBC), addresses (i) locating, (ii) querying, (iii) composing or combining, and (iv) mining biomedical resources. Each site which intends to contribute to the inventory instantiates a file on its Internet site biositemap.rdf which conforms to a defined RDF schema and uses concepts from the Biomedical Resource Ontology to describe the resources. Each biositemap.rdf file is simply a list of controlled metadata about resources (software tools, databases, material resources) that your organization uses or believes are important to biomedical research. The key enabling technologies are the Information Model (IM) which is the list of metadata fields about each resource (resource_name, description, contact_person, resource_type,...) and the Biomedical Resource Ontology (BRO) which is a controlled terminology for the resource_typeand which is used to improve the sensitivity and specificity of web searches. Biositemaps blend the features of Sitemaps (enabling efficient web-content exploration) and RSS Feeds (a mechanism for wide and effective news dissemination). As a hybrid between Sitemaps and RSS feeds, the Biositemap infrastructure facilitates a decentralized, portable, extensible and computationally tractable generation and consumption of meta-data about existent, revised and new resources for biomedical computation. Web browsers, crawlers and robots can discover, accumulate, process, integrate and deliver Biositemaps content to (human or machine) users in a variety of graphical, tabular, computational formats. Biositemaps content allows such web browsers to pool resource-associated metadata from disparate and diverse sites and present it to the user in an integrated fashion. The Biositemaps protocol provides clues, information and directives for all Biositemap web harvesters that point to the existence and content of such biomedical resources at different sites.
|
broadcast, data federation, defined rdf schema, infrastructure, meta-data, rdf, retrieve, biomedical, biositemap, sitemap
|
lists: Adaptively Sampled Particle Fluids
lists: DicomWorks
lists: MEDx
lists: Medical Image Processing and Visualization
lists: Surface-Based Atlases
lists: RESNET
lists: SurfRelax
lists: FEATURE
lists: Cardiovascular Model Repository
lists: Simtk.org
lists: ConTrack
lists: Allopathfinder
lists: Molecular Simulation Trajectories Archive of a Villin Variant
lists: BioPortal
lists: SumsDB
lists: NeuronDB
lists: BrainInfo
lists: Protege
lists: i2b2 Cross-Institutional Clinical Translational Research project
lists: GeneChip Operating Software
lists: Honig Lab
lists: Proteomics Identifications (PRIDE)
lists: ASAP: the Alternative Splicing Annotation Project
lists: MiMI Plugin for Cytoscape
lists: Substructure Index-based Approximate Graph Alignment
lists: Proteome Commons Tranche repository
lists: caTIES - Cancer Text Information Extraction System
lists: REDCap
lists: miniTUBA
lists: Einstein-Montefiore ICTR Research Informatics Core
lists: T-profiler
lists: Stanford Translational Research Integrated Database Environment and Clinical Data Warehouse
lists: GCG/SeqWeb
lists: Solstice
lists: California National Primate Research Center
lists: BioGPS: The Gene Portal Hub
lists: Blox
lists: Subcellular Location Image Finder
lists: PeptideAtlas
lists: Clair library
lists: Lyngby
lists: SimTKCore
lists: Velos
lists: Ingenuity Pathway Analysis
lists: Philips
lists: Talktech
lists: SUN Interface Engine
lists: Quadramed - Medicus, Quantim
lists: Wisconsin National Primate Research Center
lists: i2b2 Research Data Warehouse
lists: Merge Healthcare Incorporated
lists: Clinical Trial Management Application
lists: Cerner Millenium
lists: Open Clinical Report Repository
lists: Quovadx, Inc.
lists: VectorValuedHistogramNormalizer
lists: Morphometry BIRN
lists: Talairach Daemon
lists: LONI Visualization Tool
lists: LONI Debabeler
lists: LONI Pipeline Processing Environment
lists: Brede Wiki
lists: medInria
lists: FreeSurfer
lists: ITK-SNAP
lists: VoxBo
lists: Ensembl
lists: MRIcron
lists: Synchronized Histological Image Viewing Architecture
lists: LONI ShapeViewer
lists: LONI ShapeTools
lists: FFT Library
lists: NUTMEG
lists: bioDBcore
lists: Mutant Mouse Resource and Research Center
lists: Brainscape
lists: MindSeer
lists: University of Southern California LONI Software
lists: Statistics Online Computational Resource
lists: NIH MRI Study of Normal Brain Development
lists: Ontology Development and Information Extraction
lists: Mindtouch DekiWiki
lists: National Mesothelioma Virtual Bank
lists: MGH-USC Human Connectome Project
lists: Fusion ICA Toolbox
lists: Biomedical Resource Ontology
lists: Biomedical Informatics Research Network
lists: 3D Slicer
lists: Analysis of Functional NeuroImages
lists: Automated Image Registration
lists: TOADS-CRUISE Brain Segmentation Tools
lists: BrainImage Software
lists: Brede Toolbox
lists: Whole Brain Catalog
lists: Low Resolution Electromagnetic Tomography
lists: Cambridge Brain Activation
lists: ModelDB
lists: fMRI Data Center
lists: EEGLAB
lists: 3DViewnix
lists: MIPAV: Medical Image Processing and Visualization
lists: NeuroLens
lists: WFU PickAtlas
lists: Protein Subcellular Location Image Database
lists: STRIDE Virtual Biospecimen Bank
lists: BrainVoyager
is related to: Biomedical Resource Ontology
is related to: Software Distribution Sets
is related to: REX
is related to: Rat Genome Database (RGD)
has parent organization: National Centers for Biomedical Computing
has parent organization: National Institutes of Health
is parent organization of: Resource Discovery System
|
|
|
|
THIS RESOURCE IS NO LONGER IN SERVICE |
|
nif-0000-10583 |
|
|
|
SCR_001976 |
|
2026-08-04 09:40:31 |
1 |
National Institute of Mental Health
Resource Report
Resource Website
100+ mentions
|
National Institute of Mental Health (RRID:SCR_011431)
|
NIMH
|
government granting agency
|
National institute that is the largest scientific organization in the world dedicated to research focused on the understanding, treatment, and prevention of mental disorders and the promotion of mental health. NIMH envisions a world in which mental illnesses are prevented and cured. The mission of NIMH is to transform the understanding and treatment of mental illnesses through basic and clinical research, paving the way for prevention, recovery and cure. For the Institute to continue fulfilling this vital public health mission, it must foster innovative thinking and ensure that a full array of novel scientific perspectives are used to further discovery in the evolving science of brain, behavior, and experience. In this way, breakthroughs in science can become breakthroughs for all people with mental illnesses. In support of this mission, NIMH will generate research and promote research training to fulfill the following four objectives: * Promote discovery in the brain and behavioral sciences to fuel research on the causes of mental disorders * Chart mental illness trajectories to determine when, where, and how to intervene * Develop new and better interventions that incorporate the diverse needs and circumstances of people with mental illnesses * Strengthen the public health impact of NIMH-supported research To reach these goals, the NIMH divisions and programs are designed to emphasize translational research spanning bench, to bedside, to practice. For targeted priorities and funding initiatives, please visit our division websites
|
|
lists: Neuroscience Information Framework
has parent organization: NIH Blueprint for Neuroscience Research
has parent organization: National Institutes of Health
is parent organization of: NIMH Educational Resources
is parent organization of: NIMH Multimedia
is parent organization of: NIMH Image Library
is parent organization of: NIMH Video
is parent organization of: NIMH Clinical Trials
is parent organization of: NIMH Resources for Research Training and Career Development
is parent organization of: NIMH Director's Blog
is parent organization of: NIMH Publications
is parent organization of: RDoC
is parent organization of: Neuroimaging Informatics Technology Initiative
is parent organization of: Neurophysiology Imaging Facility
is parent organization of: NIMH Data Archive
is parent organization of: MRI Research Safety and Ethics
is parent organization of: Analysis of Functional NeuroImages
is parent organization of: NIMH Division of Intramural Research Programs
is parent organization of: MicroSNiPer
is parent organization of: NIH Image
|
|
|
|
|
|
nlx_inv_1005109 |
|
|
|
SCR_011431 |
|
2026-08-01 12:04:08 |
117 |
NeuroImaging Tools and Resources Collaboratory (NITRC)
Resource Report
Resource Website
100+ mentions
|
NeuroImaging Tools and Resources Collaboratory (NITRC) (RRID:SCR_003430)
|
NITRC
|
portal, storage service resource, software resource, software repository, community building portal, data repository, service resource, data or information resource
|
Software repository for comparing structural (MRI) and functional neuroimaging (fMRI, PET, EEG, MEG) software tools and resources. NITRC collects and points to standardized information about structural or functional neuroimaging tool or resource.
|
collaboration, information, resource, structural, functional, neuroimaging, MRI, fMRI, EEG, MEG, PET
|
is used by: NIF Data Federation
is used by: Consortium for Reliability and Reproducibility
is used by: DataLad
is recommended by: National Library of Medicine
lists: Dipy
lists: 3DMeshMetric
lists: MPScope
lists: VectorValuedHistogramNormalizer
lists: Faceted Search Based Ontology Visualizer
lists: Morphometry BIRN
lists: Colin 3T/7T High-resolution Atlas
lists: CMFreg
lists: BrainFX
lists: dinifti
lists: Center for Computational Biology at UCLA
lists: Convert MNI coordinates to or from XYZ
lists: Licensing issues in software and data
lists: Local Binary Pattern Analysis Tools for MR Brain Images
lists: MIView
lists: uManager
lists: Penn Hippocampus Atlas
lists: RapidArt
lists: Scribe
lists: ShapeWorks
lists: Vervet Probabilistic Atlas
lists: Talairach Daemon
lists: ADHD-200 Preprocessed Data
lists: LORIS - Longitudinal Online Research and Imaging System
lists: NVM
lists: Maps4Mipav (Exploratory JIST)
lists: Autism Tissue Program
lists: MEG Tools
lists: PyNIfTI
lists: LONI Visualization Tool
lists: Mind Research Network - COINS
lists: OpenElectrophy
lists: CIFTI Connectivity File Format
lists: 3DSlicerLupusLesionModule
lists: BrainNetworkConstructionAnalysisPlatform
lists: COMPARE
lists: Data Format Tools
lists: GesTr
lists: I/OWA
lists: MINC Example files
lists: cbiNifti: Matlab/Octave Nifti library
lists: BRAINSCut
lists: C-PAC
lists: Connectir
lists: DicomBrowser
lists: Hitachi Optical Topography System
lists: Net Station API
lists: imcalc: SPM batch image calculator
lists: BRAINSCortex
lists: Insight Segmentation and Registration Toolkit
lists: LONI Debabeler
lists: LONI Pipeline Processing Environment
lists: NiLearn
lists: MRI Studio
lists: BraVa
lists: Brede Wiki
lists: Center for Functional Neuroimaging Technologies
lists: Philips Users Community
lists: medInria
lists: Beijing: Eyes Open Eyes Closed Study
lists: vIST/e
lists: Camino
lists: Diffusion Tensor Imaging ToolKit
lists: TORTOISE
lists: NIDAG: Neuroimaging Data Access Group
lists: MRI CVPR
lists: vuTools
lists: Medical Image Processing and Visualization in Virtual Environments
lists: Brainstorm
lists: Atlas3D
lists: FMRISTAT - A general statistical analysis for fMRI data
lists: FreeSurfer
lists: Rosetta Bit
lists: Laboratory of Neuro Imaging
lists: Group ICA of fMRI Toolbox
lists: Hierarchical Attribute Matching Mechanism for Elastic Registration
lists: Internet Brain Segmentation Repository
lists: Neural ElectroMagnetic Ontologies (NEMO) Project
lists: Wavelet-based Image Fusion
lists: ITK-SNAP
lists: Internet Brain Volume Database
lists: Statistical non-Parametric Mapping
lists: VoxBo
lists: NITRC Computational Environment
lists: Spatially Constrained Parcellation
lists: Cluster reporter
lists: Cluster Extent Correction
lists: 4D Atlases Construction
lists: CIGAL
lists: CleanLine
lists: Computational Morphometry Toolkit
lists: Cognitive Paradigm Ontology
lists: aBEAT
lists: MR Connectome Automated Pipeline
lists: International Neuroinformatics Coordinating Facility
lists: Functional Regression Analysis of DTI Tract Statistics
lists: MCIC
lists: MGDM: Multi Geometric Deformable Model
lists: MIAS Registration Toolkit
lists: Medical Image Visualization and Analysis
lists: Microstructural correlation toolbox
lists: MisterI
lists: MriWatcher
lists: Multiple Correlation Function Tool
lists: NITRC Community Conferences Workshops and Meetings
lists: BRAINSFit
lists: INCF Software Center
lists: BrainVision Analyzer
lists: COGNISION
lists: DPARSF
lists: GLIRT
lists: MINC
lists: Group Level Imputation of Statistic Maps
lists: MRIcron
lists: Inter-Group Registration Toolbox
lists: MCML and CONV
lists: MEGSIM
lists: MIRIAD
lists: MRI Defacer
lists: MS lesion segmentation challenge 2008
lists: Measure Projection Toolbox
lists: Mindboggle
lists: Mindboggle-101 atlases
lists: ModelGUI
lists: Multi-Modal MRI Reproducibility Resource
lists: MultiTracer
lists: Multicomponent T2 estimation with stimulated echo correction
lists: NCANDA: Data Integration Component
lists: NFT
lists: Net Station EEG Software
lists: Network Based Statistic Toolbox
lists: NeuroScope
lists: Numerical Fibre Generator
lists: PSTNet: MRI Simulator
lists: cortex
lists: iBEAT
lists: M3
lists: Group ICA Of EEG Toolbox
lists: 4D-PARSeR Pathological Anatomy Regression via Segmentation and Registration
lists: Automatic Segmentation Tool Adapter
lists: DTI-TEMPLATE-RHESUS-MACAQUES
lists: LONI Provenance Editor
lists: MNI N3
lists: MRI Digital Projection System
lists: NIDB - Neuroinformatics Database
lists: NIPY
lists: NIRAL Utilities
lists: NIRx NIRS Neuroimaging
lists: NIRx2nirs: A NIRx to .nirs data converter
lists: NITRC Enhanced Services
lists: NITRC GForge Extensions
lists: NPTK
lists: NeuroImaging Analysis Kit (NIAK)
lists: NiBabel
lists: NiftyRec
lists: Nipype
lists: Nirfast
lists: Nitime
lists: Non-Rigid Image Registration Evaluation Project
lists: Normative Independent Component Analysis
lists: OEI: fMRI compatible olfactometer
lists: ORS Visual SI
lists: OpenMEEG
lists: PANDA
lists: PESTICA fMRI Physio Detection/Correction
lists: PHYCAA+: adaptive physiological noise correction for BOLD fMRI
lists: ParaView
lists: Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR)
lists: Presentation
lists: PySurfer
lists: Pythagorean Displacement and Motion Regressors
lists: Quantitative Diffusion Tools
lists: R-package for adaptive DWI analysis
lists: R-package for adaptive fMRI analysis
lists: REX
lists: RFT FDR
lists: ROBEX
lists: RT Image
lists: Resource Ontology Discussion Group
lists: Rodent Brain Extraction Tool
lists: Rodent Cortical Thickness Analysis
lists: S-rep Fitting Statistics and Segmentation
lists: SCIRun
lists: SCRalyze
lists: SOCK
lists: SPHARM-MAT
lists: SPHARM-PDM Toolbox
lists: SRI24 Atlas: Normal Adult Brain Anatomy
lists: Seg3D
lists: ShapeComplexAtlas
lists: Signed Differential Mapping
lists: Sleuth
lists: Slice:Drop
lists: Slicer3 Example Modules
lists: Source Information Flow Toolbox
lists: Spanish Resting State Network
lists: Spatial Analysis 3D
lists: Stereoscopic Atlas of Intrinsic Brain Networks
lists: UNC Infant 0-1-2 Atlases
lists: UNC Primate Brain Atlas
lists: XCEDE Schema
lists: peak nii
lists: pydicom
lists: pyxnat
lists: scikit-learn
lists: shapeAnalysisMANCOVA - SPHARM tools
lists: VMTK in 3D Slicer
lists: 3D Interactive Chemical Shift Imaging
lists: BRAINSSurfaceStats
lists: Brain lesion segmentation tool using SVM
lists: Diffusion Tractography with Kalman Filter
lists: Fast Nonlocal Means for MRI denoising
lists: Monte Carlo Simulation Software: tMCimg
lists: Web Interfaces for Multiscale Images
lists: STAPLE
lists: Segmentation Validation Engine
lists: Spatial Statistical Parametric Mapping
lists: SpineSegmentation module for 3DSlicer
lists: Stochastic Tractography System
lists: Subject Library
lists: TAPIR
lists: TARQUIN
lists: Template Image Processing Library
lists: TetraMetrix
lists: TractoR: Tractography with R
lists: Triangle BioSystems
lists: TumorSim
lists: TurtleSeg
lists: UNC Human Brain Atlas
lists: VR Worlds 2
lists: Vaa3D
lists: ValMap: simple statistical mapping tool
lists: WFU Biological Parametric Mapping Toolbox
lists: WFU Pipeline
lists: Working Memory Trainer
lists: vis: SPM Visualized Statistics toolbox
lists: Synchronized Histological Image Viewing Architecture
lists: LONI ShapeViewer
lists: LONI ShapeTools
lists: FFT Library
lists: Automated recognition of brain region mentions in neuroscience literature.
lists: NUTMEG
lists: Cognitive Atlas
lists: Mouse BIRN Atlasing Toolkit
lists: Temporal-Lobe: Hippocampal - Parahippocampal Neuroanatomy of the Rat
lists: FSL
lists: LEAD-DBS
lists: Brainscape
lists: EONS
lists: BioImage Suite
lists: ADNI - Alzheimer's Disease Neuroimaging Initiative
lists: MindSeer
lists: XNAT - The Extensible Neuroimaging Archive Toolkit
lists: brainmap.org
lists: ImageJ
lists: Neuroimaging Informatics Technology Initiative
lists: IMOD
lists: Statistics Online Computational Resource
lists: signalml.org
lists: Mouse Biomedical Informatics Research Network
lists: NIH MRI Study of Normal Brain Development
lists: MGH-USC Human Connectome Project
lists: Fusion ICA Toolbox
lists: Corpus Callosum Thickness Profile Analysis Pipeline
lists: ABIDE
lists: Mouse Connectome Project
lists: NITRC-IR
lists: Open Connectome Project
lists: neurodebian
lists: NIMH Data Archive
lists: ANTS - Advanced Normalization ToolS
lists: XNAT Extras
lists: TrackVis
lists: Brain Connectivity Toolbox
lists: FieldTrip
lists: LONI Inspector
lists: BrainLiner
lists: OpenNeuro
lists: Biomedical Informatics Research Network
lists: McConnell Brain Imaging Center MNI Macaque Atlas
lists: SINOMO
lists: DONE: Detection of Outlier NEurons
lists: Neuro Bureau
lists: ADHD-200 Sample
lists: 1000 Functional Connectomes Project
lists: PubBrain
lists: CBRAIN
lists: ENIGMA: Enhancing Neuro Imaging Genetics Through Meta-Analysis
lists: Bisque
lists: 3D Slicer
lists: Internet Analysis Tools Registry
lists: Neuromorphometrics
lists: Analysis of Functional NeuroImages
lists: Automated Image Registration
lists: BASH4RfMRI
lists: MNE software
lists: Object-Oriented Development Interface for NMR
lists: NYU CSC TestRetest
lists: Optseq - fMRI Event Scheduler
lists: TOADS-CRUISE Brain Segmentation Tools
lists: MouseTracker
lists: Hammer And WML Modules for 3D Slicer
lists: ABC (Atlas Based Classification)
lists: Allen Brain Atlas API
lists: Viking Viewer for Connectomics
lists: ARCTIC
lists: ArtRepair for robust fMRI
lists: Automatic Registration Toolbox
lists: Artifact Detection Tools
lists: Segmentation of Hippocampus Subfields
lists: ASL data processing tool box
lists: Bioelectromagnetism Matlab Toolbox
lists: PyMVPA
lists: Human Imaging Database
lists: BrainImage Software
lists: Brede Toolbox
lists: Computerized Anatomical Reconstruction and Editing Toolkit
lists: BrainColor: Collaborative Open Labeling Online Resource
lists: Registry Builder Data Harmonization and Aggregation Tool
lists: PsychoPy
lists: NiftySim
lists: NiftyReg
lists: Neurobiological Image Management System
lists: BRAINSTools
lists: MeshValmet: Validation Metric for Meshes
lists: BrainSuite
lists: DW-MRI Random Walk Simulator
lists: Web Game for Collaborative Labeling
lists: BrainVoyager Brain Tutor
lists: POLGUI - Matlab Polhemus Interface
lists: BrainVoyager Brain Viewer
lists: NeuroPub Visualizer
lists: NODDI Matlab Toolbox
lists: MITK Diffusion
lists: Federal Interagency Traumatic Brain Injury Research Informatics System
lists: BrainMaps.org
lists: PRoNTo
lists: Scalable Brain Atlas
lists: NIH Human Connectome Project
lists: Mesh-based Monte Carlo (MMC)
lists: Matlab Neuroshare Library
lists: MRtrix
lists: MABMIS: Multi-Atlas Based Multi-Image Segmentation
lists: Monte Carlo eXtreme
lists: Whole Brain Catalog
lists: BCILAB
lists: ABSORB: Atlas Building by Self-Organized Registration and Bundling
lists: VAMCA
lists: SPM
lists: Low Resolution Electromagnetic Tomography
lists: SurfStat
lists: Cambridge Brain Activation
lists: CLEAVE
lists: CoCoMac
lists: fMRI Data Center
lists: Function BIRN
lists: EEGLAB
lists: BrainVISA / Anatomist
lists: MIPAV: Medical Image Processing and Visualization
lists: NeuroLens
lists: WFU PickAtlas
lists: Open Access Series of Imaging Studies
lists: BioSig: An Imaging Bioinformatics System for Phenotypic Analysis
lists: xjView: A Viewing Program For SPM
lists: Human Connectome Coordination Facility
lists: ASL spm8
lists: Integrated Manually Extracted Annotation
lists: JIST: Java Image Science Toolkit
lists: Functional Analysis of Diffusion Tensor
lists: AHEAD
lists: ANTsR
lists: 3DBar
lists: Cancer Imaging Archive (TCIA)
lists: Pediatric Imaging Neurocognition and Genetics
lists: Atlasing of the basal ganglia
lists: cmrep
lists: 3D DTI Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood
lists: AutoSeg
lists: BXH/XCEDE Tools
lists: Baby Brain Toolkit
lists: Best Practices for Software Development
lists: Brain Catalogue
lists: Draw3D and Meshinator
lists: Brain Segmentation Testing Protocol
lists: BrainNet Viewer
lists: BrainSolution
lists: Brainvox
lists: C8: Corpus Callosum Computations
lists: CAMINO-TRACKVIS
lists: CANDI Share: Schizophrenia Bulletin 2008
lists: CBS High-Res Brain Processing Tools
lists: CCSeg - Corpus Callosum Segmentation
lists: Cerebral Blood Flow Database and Analysis Pipeline
lists: Create DWI Atlas
lists: DFBIdb
lists: DIAMOND
lists: DICOM UploadGUI
lists: DOTS WM tract segmentation
lists: DTI Fiber Tract Statistics
lists: DW-MRI registration in FSL
lists: DbGaP Cleaner
lists: DentalTools
lists: Diffusion MRI - In-vivo and Phantom Data
lists: Diffusion MRI at DKFZ Heidelberg
lists: Diffusion Warp
lists: Disease State Prediction
lists: EEG human categorization data
lists: Epsilon Radial Networks
lists: FBIRN Image Processing Scripts
lists: FSL extensions
lists: False Discovery Rate Weighted
lists: Fiber Tracking Tool
lists: Fiber-tracking based on Finsler distance
lists: FiberViewerLight
lists: Finsler tractography module for Slicer
lists: Fluid Registration and Atlas Toolkit
lists: Framework for Open Programmatic Access
lists: Functional Connectivity Community
lists: Functional ROI Atlas
lists: Functional and Structural Neuroimaging Journals Listing
lists: GAMBIT
lists: GAMMA
lists: BRAINSMush
lists: GPU based affine registration
lists: GRETNA
lists: Generalized Covariance Analysis
lists: Generalized PPI Toolbox
lists: Group Information Guided ICA
lists: Groupwise Image Registration Toolbox
lists: HD Neuro-Informatics
lists: Hitachi2nirs
lists: IDeA Lab brain image processing suite
lists: INCF Neuroimaging Data Sharing
lists: INIA19 Primate Brain Atlas
lists: JHU Proj. in Applied Medical Imaging
lists: JIST Resources for Algorithm Development
lists: BRAINSROIAuto
lists: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI
lists: Landman NeuroImaging Tools
lists: Local Label Learning Segmentation
lists: MASI Label Fusion
lists: MASIMatlab
lists: MATLAB Tutorial on Diffusion Tensor MRI
lists: Multi-Echo Independent Component Regression Group-Level Connectivity Dataset
lists: Multi-fiber Reconstruction from DW-MRI
lists: NITRC Books
lists: Network Modification Tool Lite
lists: Non-rigid groupwise registration method
lists: Rockland Download Link Script
lists: Subject Order-Independent Group ICA
lists: Task Independent Fluctuations Discussion
lists: UNC Human DTI Brain Atlas
lists: BRAINSTestData
lists: cPPI Toolbox for fMRI
lists: fMRI Classification in R
lists: fMRI-CPCA
lists: fNIRS Data Analysis Environment
lists: factory t1 dti
lists: BRAINSDemonWarp
lists: AMILab
lists: ADJUST
lists: ALVIN
lists: Age Related Atrophy Dataset
lists: B0 and eddy current correction for DTI
lists: BESA
lists: BSMac
lists: BVQXtools
lists: BioMesh3D
lists: BrainBrowser
lists: BrainGraph Editor
lists: BrainMagix SPM Viewer
lists: BrainMask Volume Processing Tool
lists: Brainsight
lists: Brainwaver
lists: CANDI Neuroimaging Access Point
lists: CBFBIRN
lists: CDF-HC PointSetReg
lists: GIMIAS
lists: CURRY
lists: CalaTK
lists: CoCoMac-Paxinos3D viewer
lists: INVIZIAN
lists: CONN
lists: Connectome File Format
lists: Connectome Viewer
lists: Cytoseg
lists: DICCCOL predictor
lists: DRAMMS
lists: DSI Studio
lists: Level-set Segmentation for Slicer3
lists: DTI BrainImageScope
lists: DTI-Reg
lists: DTIProcess ToolKit
lists: DWI/DTI Quality Control Tool: DTIPrep
lists: Diffusional Kurtosis Estimator
lists: Distributome
lists: ImageVis3D
lists: E-Prime
lists: E-Prime Extensions for fMRI
lists: EEGVIS
lists: EEProbe
lists: EMSE Suite
lists: LONI Brain Parser
lists: EPILAB
lists: ERPLAB
lists: FIV
lists: FMRIpower
lists: Fiber Optic Button Response System
lists: Free-D
lists: GIFTI
lists: GMAC: A Matlab toolbox for spectral Granger causality analysis of fMRI data
lists: HAMMER Suite
lists: HERMES
lists: HI-SPEED Software Packets
lists: Homer2
lists: IIT Human Brain Atlas
lists: JIP Analysis Toolkit
lists: Jim
lists: LDDMM
lists: LIBEEP
lists: LIMO EEG
lists: LONI De-identification Debablet
lists: Waxholm Space
lists: Lipsia
lists: Lumina LP- 400 Response System
lists: MRI Dataset for Hippocampus Segmentation
lists: MaCH-Admix
lists: Mach2dat
lists: Mag Design and Engineering
lists: MagVenture: MagPro Magnetic Stimulator
lists: SR Research EyeLink Eye Trackers
lists: Mango
lists: Manually Labeled MRI Brain Scan Database
lists: MarsBaR region of interest toolbox for SPM
lists: MazeSuite
lists: MoTrak Head Motion Tracking System
lists: NCIGT Fast Imaging Library
lists: NeuroWeb - NeuroImaging Database
lists: Neuroimaging Made Easy Blog
lists: Neurophysiological Biomarker Toolbox
lists: SVV
lists: Slicer3 Module Rician noise filter
lists: UNC/Utah NAMIC DTI Fiber Analysis Framework
lists: caGWAS
lists: eConnectome
lists: elastix
lists: fMRI Artefact rejection and Sleep Scoring Toolbox
lists: MACH
lists: fMRI Grocer
lists: fNIR Devices
lists: fanDTasia Java Applet: DT-MRI Processing
lists: g.BSanalyze
lists: iTools
lists: iView X MRI-LR - Eye Tracking for fMRI
lists: map3d
lists: NICE-SIGN
lists: NIRS-SPM
lists: NITRC Community
lists: NordicNeuroLab
lists: PICSL Multi-Atlas Segmentation Tool
lists: Paradigm
lists: Pipeline Neuroimaging VirtualEnvironment
lists: Pipeline System for Octave and Matlab
lists: ProbabilisticBiasCorrection
lists: Program for optimal design of blocked fMRI experiments
lists: QCQP
lists: REST: a toolkit for resting-state fMRI
lists: Robust Biological Parametric Mapping
lists: SPM SS - fMRI functional localizers
lists: Solar Eclipse Imaging Genetics tools
lists: VPixx: VIEWPixx /3D
lists: resting-state pediatric imaging template
lists: DATAPixx
lists: GTRACT
lists: Wisconsin White Matter Hyperintensities Segmentation Toolbox
lists: COBRE
lists: AngioCalc Cerebral Aneurysm Calculator
lists: USC Multimodal Connectivity Database
lists: BRAINSConstellationDetector
lists: ASA - Advanced Source Analysis
lists: BRAINSTracer
lists: EYE-EEG (combined eye-tracking & EEG)
lists: BrainVoyager
lists: Mean Machine
lists: ERP PCA Toolkit
lists: LiverSegm
lists: GSA-SNP
lists: FastICA
lists: DTI Atlas Builder
lists: Neuroimaging in Python
lists: Brain Decoder Toolbox
lists: iso2mesh
lists: CUDA-SPHERE-FWD-MEEG
lists: BrainCSI
lists: BrainVisa Morphology extensions
lists: VPixx: VIEWPixx
lists: VPixx: PROPixx
lists: GenGen
lists: MACH 1.0
lists: PennCNV
lists: SumsDB
lists: Integrated Software
lists: NeuroLex
lists: Parkinson's Progression Markers Initiative
lists: NeuroSynth
lists: Textpresso
lists: ANNOVAR
lists: Graphtools
lists: Grantees Meeting for NITRC
lists: FP-CIT SPECT brain template in MNI space
lists: Brain Computer Interface 2000 Software Package
lists: BEAST
lists: Brian Simulator
lists: Connectome Workbench
lists: ConnectomeDB
lists: DIAN - Dominantly Inherited Alzheimer Network
lists: NKI-RS Enhanced Sample
lists: EPILEPSIE database
lists: GEneral NEural SImulation System: The Neurospaces Project
lists: Hippocampome.org
lists: Kitware
lists: Kymata Atlas
lists: L-Measure
lists: MDR
lists: neuroConstruct
lists: Neurolucida
lists: NeuroMorpho.Org
lists: NEURON
lists: NeuronJ: An ImageJ Plugin for Neurite Tracing and Quantification
lists: NeuroVault
lists: National Institute on Aging Genetics of Alzheimer’s Disease Data Storage Site (NIAGADS)
lists: NINDS Repository
lists: NKI/Rockland Sample
lists: ODIN
lists: OBART
lists: Open Science Framework
lists: PLINK
lists: MBF BioScience: Stereo Investigator
lists: studyforrest.org
lists: Virtual brain
lists: TREES toolbox
lists: APERTURE
lists: 3dsvm
lists: 7T Structural MRI scans ATAG
lists: Atlases of amygdala and hippocampus for pediatric populations
lists: BetA-Series COrrelation
lists: bic-mni-models
lists: BiofilmQuant
lists: Biomag Discussion Group on Yahoo
lists: Brain Entropy in space and time (BEst)
lists: Brainnetome Atlas Viewer
lists: Brainnetome fMRI toolkit
lists: BROCCOLI
lists: C-MIND Database
lists: CARLsim: a GPU-accelerated SNN Simulator
lists: Clinical Toolbox for SPM
lists: CMIND PY
lists: COST
lists: dcm2nii
lists: DICOMConvert
lists: Displacement Field Viewer
lists: DTI denoising
lists: Efficient Longitudinal Upload of Depression in the Elderly (ELUDE)
lists: Efficient Permutation Testing
lists: DTI-TK
lists: ERPwavelab
lists: ExPosition Packages
lists: Fast T2 relaxation data analysis with stimulated echo correction and non-local spatial regularisation
lists: Forward: Accurate finite element electromagnetic head models
lists: freesurfR
lists: Functional Connectivity Analysis Tool for near-infrared spectroscopy data
lists: GazeReader
lists: gCCA
lists: Generation R Pediatric MRI Resources
lists: GIMME
lists: GLMdenoise: a fast, automated technique for denoising task-based fMRI data
lists: GraphVar: A toolbox for comprehensive graph analyses of functional brain connectivity
lists: HAMMER: Deformable Registration
lists: HBM Hackathon
lists: HDBIG
lists: High-quality diffusion-weighted imaging of Parkinsons disease
lists: MGA - Multimodal Glioma Analysis
lists: Image Synthesis Tools
lists: Imeka Tractography Service
lists: International Imaging Genetics Conference
lists: Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0
lists: Iterative dual-regression with sparse prior
lists: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI
lists: KWScene: MRML-based Atlas and Scene Builder/Reader/Writer
lists: L-Neuron
lists: Laplace Beltrami Filter on QuadEdge Meshes
lists: libSBML
lists: Lightweight Data Pipeline
lists: Longitudinal MS Lesion Imaging Archive
lists: MARS (Multi-Atlas Robust Segmentation)
lists: minc-toolkit
lists: minc-toolkit-testsuite
lists: MISST - Microstructure Imaging Sequence Simulation ToolBox
lists: MRI Neuroanatomy Labeling Services
lists: MRIcroS
lists: Multivariate General Linear Models (MGLM) on Riemannian Manifolds
lists: Neoseg
lists: NeoSegPipeline
lists: NeuriteTracer
lists: NeuroElf
lists: Neuron-C
lists: NIH Pediatric MRI Data Repository
lists: NIH-CIDI Lung Segmentation Tool
lists: NiiStat
lists: Northwestern University Schizophrenia Data and Software Tool (NUSDAST)
lists: Notion ResearchPACS
lists: NTU-DSI-122: a DSI template in ICBM-152 space
lists: OpenViBE
lists: OpenWalnut
lists: Orientation Distribution Function in Constant Solid Angle (CSA-ODF)
lists: Parkinsons Disease Discovery Database
lists: Prediction and Diagnosis for Depression and Schizophrenia
lists: Preprocessed Connectomes Project
lists: Principal Components Analysis of Scalar, Vector, and Mesh Vertex Data
lists: Ruby NIfTI
lists: SCORE
lists: SFMProject
lists: ShapePopulationViewer
lists: Simulated DW-MRI Brain Data Sets for Quantitative Evaluation of Estimated Fiber Orientations
lists: SPIKECOR: fMRI tool for automated correction of head motion spikes
lists: Spinal Cord Toolbox
lists: Stark Cross-Sectional Aging
lists: Brain Coactivation Map
lists: Multiscale Object Orientation Simulation Environment
lists: Striatal Subregional VOImap
lists: Topographica
lists: Turbo-BrainVoyager
lists: CRL Unbiased and Deformable Spatiotemporal Atlas of the Fetal Brain
lists: UNC-Wisconsin Neurodevelopment Rhesus MRI Database
lists: Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX)
lists: VMTK in 3D Slicer
lists: Wisconsin Cortical Thickness Analysis (CTA) Toolbox
lists: XFSL: An FSL toolbox
lists: XNBC
lists: YMDTI: Diffusion Tensor Images of Healthy Young Males
lists: BraTumIA (Brain Tumor Image Analysis)
lists: CAWorks
lists: Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND)
lists: Graph Theory GLM (GTG) MATLAB Toolbox
lists: Functional Mixed Processes Models
lists: Papaya
lists: Parallel Stochastic Ion Channel Simulator
lists: Advanced Connectivity Analysis (ACA)
lists: International Imaging Genetics Conference
lists: Analyze Software System
lists: Optseq
lists: ENIGMA-DTI Pipeline
lists: Umea Brain Arteries
lists: MetaSearch
lists: BrainBox
lists: BluePyOpt
lists: MultiXplore
lists: Automatic Tractography-based Parcellation Pipeline
lists: Epilepsy T1 and Hippocampal Segmentation Datasets
lists: Mixed Effect Model of Genetic-Set and Environment Interaction
lists: masked ICA (mICA) Toolbox
lists: Altered States Database
lists: User Friendly Functional Connectivity - UF²C
lists: Intra- and inter-scanner reliability of RS-fMRI BOLD and ASL with eyes closed vs. eyes open
lists: Region to Region
lists: Waxholm Space Atlas of the Sprague Dawley Rat Brain
lists: Nutil - Neuroimaging utilities
lists: MeshView
lists: vini: A viewer for fMRI data
lists: brainGraph
lists: Diffusion Toolkit
lists: Neurodocker
lists: HeuDiConv: a heuristic-centric DICOM converter
lists: Knowing what you know (kwyk) - Bayesian Brain Parcellation
lists: Rhesus Macaque Brain Atlases
lists: MIITRA atlas
lists: MonkeyCBP
lists: ReproNim/containers
lists: ReproMan
lists: ABCD-ReproNim Course
lists: Ventricular Morphometry Analysis System
lists: ONPRC18 Multimodal MRI Atlas
lists: volBrain
lists: Waxholm Space
is affiliated with: Manual Align RTS2000
is related to: University of California; San Diego;National Center for Microscopy and Imaging Research - NCMIR
has parent organization: Harvard University; Cambridge; United States
has parent organization: NIH Blueprint for Neuroscience Research
is parent organization of: Licensing issues in software and data
is parent organization of: NITRC Enhanced Services
is parent organization of: Resource Ontology Discussion Group
is parent organization of: NITRC-IR
is parent organization of: 1000 Functional Connectomes Project
is parent organization of: NYU CSC TestRetest
is parent organization of: NITRC Books
is parent organization of: NITRC Community
is parent organization of: ABIDE
is parent organization of: COBRE
is parent organization of: Group Sparse Canonical Correlation Analysis
is parent organization of: Challenge Competitions Collection
is parent organization of: 1000 Functional Connectomes Project
|
|
NIH Blueprint for Neuroscience Research ;
NIMH ;
NIDA ;
NIBIB U24 EB023398;
NINDS R44 NS074540 |
PMID:26044860
PMID:18999128 |
Free, Freely available |
|
nif-0000-00202, r3d100010784, r3d100011515 |
https://doi.org/10.17616/R3W32N |
|
|
SCR_003430 |
Neuroimaging Informatics Tools and Resources Clearinghouse, , NeuroImaging Tools and Resources Collaboratory, Neuroimaging Informatics Tools Resources Clearinghouse, NITRC - Neuroimaging Informatics Tools and Resources Clearinghouse, NITRC - Neuroimaging Informatics Tools Resources Clearinghouse |
2026-08-04 09:40:54 |
338 |
Neuroimaging Data Model
Resource Report
Resource Website
1+ mentions
|
Neuroimaging Data Model (RRID:SCR_013667)
|
NIDM
|
data set, narrative resource, data or information resource, standard specification
|
Collection of specification documents that define extensions the the W3C PROV standard for the domain of human brain mapping. NIDM uses provenance information as a means to link components from different stages of the scientific research process from dataset descriptors and computational workflow, to derived data and publication.
|
data sharing, neuroimaging, fmri, mri, dti, semantic web
|
is used by: FSL
is used by: SPM
is used by: Analysis of Functional NeuroImages
is listed by: National Institute on Drug Abuse
has parent organization: Karolinska Institute; Stockholm; Sweden
has parent organization: International Neuroinformatics Coordinating Facility
works with: PyNIDM
|
|
|
|
Available to the research community |
|
|
https://github.com/incf-nidash/nidm |
|
|
SCR_013667 |
|
2026-08-04 09:43:15 |
9 |
3dsvm
Resource Report
Resource Website
|
3dsvm (RRID:SCR_014083)
|
|
data processing software, software application, software resource, image analysis software
|
A command-line program and plugin for AFNI built around SVM-Light. It performs support vector machine (SVM) analysis on fMRI data and runs on Unix+X11+Motif systems, including SGI, Solaris, Linux, and Mac OS X.
|
plugin, afni, svm light, support vector machine, image analysis software
|
uses: Analysis of Functional NeuroImages
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
|
|
|
|
Public |
|
|
http://www.nitrc.org/projects/afni_3dsvm |
|
|
SCR_014083 |
|
2026-08-04 09:43:19 |
0 |
