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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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BioImage Suite Resource Report Resource Website 50+ mentions |
BioImage Suite (RRID:SCR_002986) | data visualization software, image analysis software, image processing software, software application, data processing software, software resource | Web applications for analysis of multimodal/multispecies neuroimaging data. Image analysis software package. Has facilities for DTI and fMRI processing. Capabilities for both neuro/cardiac and abdominal image analysis and visualization. Many packages are extensible, and provide functionality for image visualization and registration, surface editing, cardiac 4D multi-slice editing, diffusion tensor image processing, mouse segmentation and registration, and much more. Can be intergrated with other biomedical image processing software, such as FSL, AFNI, and SPM. | Analysis, multimodal, multispecies, neuroimaging, data, DTI, fMRI, processing, visualization, registration, surface, editing, BRAIN Initiative |
is recommended by: BRAIN Initiative is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian is related to: 3D Slicer has parent organization: Yale University; Connecticut; USA |
NIBIB R03 EB012969; NIBIB R01 EB006494; NIMH MH114805 |
PMID:21249532 | Free, Available for download, Freely available | nif-0000-30179 | https://sources.debian.org/src/bioimagesuite/, http://www.nitrc.org/projects/bioimagesuite, https://medicine.yale.edu/bioimaging/suite/ | http://bioimagesuite.yale.edu/index.aspx | SCR_002986 | Bioimagesuite Web | 2026-08-12 10:48:42 | 65 | ||||
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NUTMEG Resource Report Resource Website 10+ mentions |
NUTMEG (RRID:SCR_002748) | NUTMEG | image analysis software, software application, data processing software, time-series analysis software, software resource, data analysis software, 1d time-series analysis software, signal processing software | Software MEG/EEG analysis toolbox for reconstructing neural activation and overlaying it onto structural MR images. Toolbox runs under MATLAB in conjunction with SPM2 and can be used with Linux/UNIX, Mac OS X, and Windows platforms. | MEG, EEG, analysis, reconstructing, neural, activation, overlaying, structural, MR, image, BRAIN Initiative |
is recommended by: BRAIN Initiative is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps has parent organization: University of California at San Francisco; California; USA |
NIBIB EB022717; NIDCD F31 DC006762; NIDCD R01 DC004855 |
PMID:16012626 | nif-0000-24052 | http://www.nitrc.org/projects/nutmeg, | http://www.radiology.ucsf.edu/research/labs/biomagnetic-imaging/nutmeg | SCR_002748 | Neurodynamic Utility Toolbox for Magnetoencephalography and Electroencephalography | 2026-08-12 10:48:40 | 31 | ||||
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IMOD Resource Report Resource Website 1000+ mentions |
IMOD (RRID:SCR_003297) | IMOD | image analysis software, image processing software, software application, source code, data processing software, software resource | A free, cross-platform set of image processing, modeling and display programs used for tomographic reconstruction and for 3D reconstruction of EM serial sections and optical sections. The package contains tools for assembling and aligning data within multiple types and sizes of image stacks, viewing 3-D data from any orientation, and modeling and display of the image files. IMOD 4.1.8 Is Now Available for Linux, Windows, and Mac OS X | electron microscopy, magnetic resonance, tomographic reconstruction, reconstruction, segmentation, 3d volume |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: SoftCite has parent organization: University of Colorado Boulder; Colorado; USA |
NCRR ; NIGMS ; NIBIB |
PMID:27444392 | Free, Available for download, Freely available | nif-0000-31686 | http://www.nitrc.org/projects/imod | SCR_003297 | IMOD - 3D Reconstruction and Analysis | 2026-08-12 10:48:46 | 1685 | ||||
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MGH-USC Human Connectome Project Resource Report Resource Website 100+ mentions |
MGH-USC Human Connectome Project (RRID:SCR_003490) | MGH/UCLA HCP | portal, instrument manufacture, data or information resource, production service resource, service resource, material service resource | A multi-center project comprising two distinct consortia (Mass. Gen. Hosp. and USC; and Wash. U. and the U. of Minn.) seeking to map white matter fiber pathways in the human brain using leading edge neuroimaging methods, genomics, architectonics, mathematical approaches, informatics, and interactive visualization. The mapping of the complete structural and functional neural connections in vivo within and across individuals provides unparalleled compilation of neural data, an interface to graphically navigate this data and the opportunity to achieve conclusions about the living human brain. The HCP is being developed to employ advanced neuroimaging methods, and to construct an extensive informatics infrastructure to link these data and connectivity models to detailed phenomic and genomic data, building upon existing multidisciplinary and collaborative efforts currently underway. Working with other HCP partners based at Washington University in St. Louis they will provide rich data, essential imaging protocols, and sophisticated connectivity analysis tools for the neuroscience community. This project is working to achieve the following: 1) develop sophisticated tools to process high-angular diffusion (HARDI) and diffusion spectrum imaging (DSI) from normal individuals to provide the foundation for the detailed mapping of the human connectome; 2) optimize advanced high-field imaging technologies and neurocognitive tests to map the human connectome; 3) collect connectomic, behavioral, and genotype data using optimized methods in a representative sample of normal subjects; 4) design and deploy a robust, web-based informatics infrastructure, 5) develop and disseminate data acquisition and analysis, educational, and training outreach materials. | human, structural, functional, neural, white matter, fiber, brain, in vivo, genomic, neuroimaging, visualization, neuroanatomy, genotype, connectivity, connectivity model, neural pathway, phenomic, connectomics, quantification, scanner, eeg, meg, shape analysis, spatial transformation, diffusion spectrum, q-ball, tensor metric, fiber tracking, connectome, behavior, scanner, web resource, diffusion spectrum, q-ball, tensor metric, quantification, shape analysis, spatial transformation, fiber tracking, FASEB list |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps has parent organization: Laboratory of Neuro Imaging has parent organization: Harvard Medical School; Massachusetts; USA has parent organization: NIH Human Connectome Project is parent organization of: USC Multimodal Connectivity Database |
Normal | NIH ; NIH Blueprint for Neuroscience Research |
Open unspecified license, (BSD/MIT-Style), LONI Software License, Public Domain | nif-0000-35789 | http://www.nitrc.org/projects/hcp_mgh-ucla | SCR_003490 | Harvard/MGH-UCLA Human Connectome Project, Harvard/MGH-UCLA Consortium: Human Connectome Project, HCP Harvard/MGH-UCLA, MGH/UCLA Consortium: Human Connectome Project | 2026-08-12 10:48:48 | 186 | ||||
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NIH MRI Study of Normal Brain Development Resource Report Resource Website 1+ mentions |
NIH MRI Study of Normal Brain Development (RRID:SCR_003394) | Pediatric MRI Study | data or information resource, narrative resource, data set, experimental protocol | Data sets of clinical / behavioral and image data are available for download by qualified researchers from a seven year, multi-site, longitudinal study using magnetic resonance technologies to study brain maturation in healthy, typically-developing infants, children, and adolescents and to correlate brain development with cognitive and behavioral development. The information obtained in this study is expected to provide essential data for understanding the course of normal brain development as a basis for understanding atypical brain development associated with a variety of developmental, neurological, and neuropsychiatric disorders affecting children and adults. This study enrolled over 500 children, ranging from infancy to young adulthood. The goal was to study each participant at least three times over the course of the project at one of six Pediatric Centers across the United States. Brain MR and clinical/behavioral data have been compiled and analyzed at a Data Coordinating Center and Clinical Coordinating Center. Additionally, MR spectroscopy and DTI data are being analyzed. The study was organized around two objectives corresponding to two age ranges at the time of enrollment, each with its own protocols. * Objective 1 enrolled children ages 4 years, 6 months through 18 years (total N = 433). This sample was recruited across the six Pediatric Study Centers using community based sampling to reflect the demographics of the United States in terms of income, race, and ethnicity. The subjects were studied with both imaging and clinical/behavioral measures at two year intervals for three time points. * Objective 2 enrolled newborns, infants, toddlers, and preschoolers from birth through 4 years, 5 months, who were studied three or more times at two Pediatric Study Centers at intervals ranging from three months for the youngest subjects to one year as the children approach the Objective 1 age range. Both imaging and clinical/behavioral measures were collected at each time point. Participant recruitment used community based sampling that included hospital venues (e.g., maternity wards and nurseries, satellite physician offices, and well-child clinics), community organizations (e.g., day-care centers, schools, and churches), and siblings of children participating in other research at the Pediatric Study Centers. At timepoint 1, of those enrolled, 114 children had T1 scans that passed quality control checks. Staged data release plan: The first data release included structural MR images and clinical/behavioral data from the first assessments, Visit 1, for Objective 1. A second data release included structural MRI and clinical/behavioral data from the second visit for Objective 1. A third data release included structural MRI data for both Objective 1 and 2 and all time points, as well as preliminary spectroscopy data. A fourth data release added cortical thickness, gyrification and cortical surface data. Yet to be released are longitudinally registered anatomic MRI data and diffusion tensor data. A collaborative effort among the participating centers and NIH resulted in age-appropriate MR protocols and clinical/behavioral batteries of instruments. A summary of this protocol is available as a Protocol release document. Details of the project, such as study design, rationale, recruitment, instrument battery, MRI acquisition details, and quality controls can be found in the study protocol. Also available are the MRI procedure manual and Clinical/Behavioral procedure manuals for Objective 1 and Objective 2. | young human, child, pediatric, experimental protocol, brain, brain development, development, mri, minc, clinical, behavior, anatomical mri, diffusion tensor imaging, mr spectroscopy, adolescent, clinical data, behavioral data, data visualization software, clinical measure, behavioral measure, physical neurological examination, behavioral rating, neuropsychological testing, structured psychiatric interview, hormonal measure, image collection, neonate, clinical neuroinformatics, dicom, minc2, magnetic resonance, nifti |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps is listed by: NIH Data Sharing Repositories is related to: NIH Data Sharing Repositories has parent organization: National Institutes of Health |
Healthy, Normal | NICHD ; NIDA ; NIMH ; NINDS ; NIH Blueprint for Neuroscience Research |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00201 | http://www.bic.mni.mcgill.ca/nihpd/info/, https://nihpd.crbs.ucsd.edu/nihpd/info/index.html | SCR_003394 | NIH Pediatric MRI Data Repository, Pediatric MRI Data Repository | 2026-08-12 10:48:47 | 6 | ||||
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signalml.org Resource Report Resource Website 1+ mentions |
signalml.org (RRID:SCR_003383) | SignalML | programming language, software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 5, 2023.An XML-based language designed for metadescription of formats, used for digital storage of biomedical time series. Using SignalML, information on the structure of binary data files can be simply and efficiently coded. Once written, this information can be used by any software, which - owing to this metadescription - can read data files in the original format. This eliminates the need for conversions and duplication of data. signalml.org provides the following resources for interchange of relevant information and ideas: * SignalML wiki * Newsgroup / mailing list The main current software project is Svarog - a SignalML-compliant signal viewer, annotator, analyzer and (future) recorder. Svarog is written in Java and is currently best fitted for display of EEG and MEG signals. Also open platform for implementing advanced signal processing methods in user-friendly environment, at the moment interfacs for Java code, standalone executables and Matlab code via Matlab Builder for Java. | analyzer, annotator, binary data, digital storage, metadescription, recorder, eeg, meg, electrocorticography, eeg modeling, forward - inverse, meg modeling, modeling |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Warsaw; Warsaw; Poland |
Committee for Scientific Research Poland | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-32899 | http://www.nitrc.org/projects/incf_signalml | SCR_003383 | 2026-08-12 10:48:47 | 2 | ||||||
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NeuroVault Resource Report Resource Website 100+ mentions |
NeuroVault (RRID:SCR_003806) | service resource, data repository, storage service resource | Data repository where researchers can publicly store and share unthresholded statistical brain activation maps produced by MRI and PET studies. | neuroimaging, fmri, mri, functional mri assay, pet, brain activation map, brain, statistical map, neuroimaging repository |
uses: NeuroSynth is used by: NIF Data Federation is used by: Integrated Datasets is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Stanford Center for Reproducible Neuroscience |
International Neuroinformatics Coordinating Facility ; Max-Planck-Gesellschaft ; Max Planck Institute for Human Cognitive and Brain Sciences; Leipzig; Germany |
Creative Commons Zero License | nlx_158106, r3d100012842 | http://neurovault.org/api, https://doi.org/10.17616/R31NJMEI | SCR_003806 | NeuroVault - A public repository of unthresholded brain activation maps | 2026-08-12 10:48:52 | 363 | ||||||
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NITRC-IR Resource Report Resource Website 1+ mentions |
NITRC-IR (RRID:SCR_004162) | NITRC IR | service resource, data or information resource, image repository, database, image database, catalog, data repository, storage service resource | Data repository for neuroimaging data in DlCOM and NIFTI formats. It allows users to search for and freely download publicly available data sets relating to normal subjects and those with diagnoses such as: schizophrenia, ADHD, autism, and Parkinson's disease.XNAT-based image registry that supports both NIfTI and DICOM images to promote re-use and integration of NIH funded data. | database, neuroimaging, magnetic resonance, mri, image collection, nifti, dicom |
uses: XNAT Central is used by: NIF Data Federation lists: 1000 Functional Connectomes Project lists: studyforrest.org is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: 1000 Functional Connectomes Project is related to: NITRC Enhanced Services has parent organization: NeuroImaging Tools and Resources Collaboratory (NITRC) |
Bipolar Disorder, Schizophrenia, Parkinson's disease, ADHD | NINDS R44 NS074540; NIBIB U24 EB023398 |
PMID:26044860 | Free, Available for download, Freely available | nlx_18447, SCR_015623 | SCR_004162 | NeuroImaging Tools and Resources Collaboratory Image Repository, NITRC Image Repository | 2026-08-12 10:48:55 | 8 | ||||
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NIMH Data Archive Resource Report Resource Website 100+ mentions |
NIMH Data Archive (RRID:SCR_004434) | NDA | service resource, data or information resource, database, data repository, storage service resource | The National Institute of Mental Health Data Archive (NDA) makes available human subjects data collected from hundreds of research projects across many scientific domains. Research data repository for data sharing and collaboration among investigators. Used to accelerate scientific discovery through data sharing across all of mental health and other research communities, data harmonization and reporting of research results. Infrastructure created by National Database for Autism Research (NDAR), Research Domain Criteria Database (RDoCdb), National Database for Clinical Trials related to Mental Illness (NDCT), and NIH Pediatric MRI Repository (PedsMRI). | afni brik, ascii, bshort, bfloat, connectome file format, cifti, clinical neuroinformatics, cor, dicom, imaging genomics, inc, minc2, nifti, os independent, philips par/rec, tex, vrml, phenotype, neuroimaging, genomic, gender, male, female, dti, fmri, mri, spectroscopy, eeg, microarray, snp, cnv, next-generation sequencing, gene regulation, gene expression, genotyping, pedigree, clinical assessment, FASEB list |
uses: HED Tags is used by: National Database for Clinical Trials related to Mental Illness is used by: RDoCdb is used by: NIH Heal Project is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: re3data.org is related to: National Database for Clinical Trials related to Mental Illness is related to: RDoCdb has parent organization: National Institute of Mental Health hosts: GUID Tool |
Autism, Autism spectrum disorder, Asperger Syndrome, Normal control, Sibling control, Parental control, Fragile X syndrome | NIMH ; NINDS ; NIEHS ; NICHD ; Center for Information Technology |
Restricted | nlx_143735, r3d100010717, r3d100012653 | http://www.nitrc.org/projects/ndarportal, https://data-archive.nimh.nih.gov/, https://doi.org/10.17616/R37K63, https://doi.org/10.17616/R3XV5P | http://ndar.nih.gov/ | SCR_004434 | NDAR, National Database for Autism Research, National Institute of Mental Health Data Archive, National Database for Autism Research (NDAR) | 2026-08-12 10:48:59 | 424 | |||
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MRI CVPR Resource Report Resource Website |
MRI CVPR (RRID:SCR_001684) | MRI CVPR | image analysis software, segmentation software, image processing software, software application, data processing software, software resource | Tools processing MRI data with a number of techniques from cvpr conference, including segmentation, matching, features, and classification. | magnetic resonance, mri, segmentation, matching, feature, classification | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Free, Freely Available | nlx_155662 | SCR_001684 | 2026-08-12 10:48:27 | 0 | ||||||||
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Diffusion Tensor Imaging ToolKit Resource Report Resource Website 10+ mentions |
Diffusion Tensor Imaging ToolKit (RRID:SCR_001642) | DTI-TK | image analysis software, software toolkit, software application, data processing software, software resource | A spatial normalization and atlas construction toolkit optimized for examining white matter morphometry using DTI data with special care taken to respect the tensorial nature of the data. It implements a state-of-the-art registration algorithm that drives the alignment of white matter (WM) tracts by matching the orientation of the underlying fiber bundle at each voxel. The algorithm has been shown to both improve WM tract alignment and to enhance the power of statistical inference in clinical settings. A 2011 study published in NeuroImage ranks DTI-TK the top-performing tool in its class. Key features include: * open standard-based file IO support: NIfTI format for scalar, vector and tensor image volumes * tool chains for manipulating tensor image volumes: resampling, smoothing, warping, registration & visualization * pipelines for WM morphometry: spatial normalization & atlas construction for population-based studies * built-in cluster-computing support: support for open source Sun Grid Engine (SGE) * Interoperability with other popular DTI tools: AFNI, Camino, FSL & DTIStudio * Interoperability with ITK-SNAP: support multi-modal visualization and segmentation | dti, visualization, segmentation, resampling, smoothing, warping, registration, spatial normalization, atlas construction, analysis, atlas application, intersubject, image-to-template, analyze, nifti-1, macos, linux |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Diffusion MRI of Traumatic Brain Injury is related to: Camino is related to: MRI Studio has parent organization: University of Pennsylvania; Philadelphia; USA has parent organization: SourceForge |
NIBIB 1R03EB009321-01 | Free, Available for download, Freely available | nlx_153914 | http://www.nitrc.org/projects/dtitk | SCR_001642 | 2026-08-12 10:48:26 | 25 | ||||||
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Brainstorm Resource Report Resource Website 500+ mentions |
Brainstorm (RRID:SCR_001761) | Brainstorm | data visualization software, software application, data processing software, software resource, data analysis software | Software as collaborative, open source application dedicated to analysis of brain recordings: MEG, EEG, fNIRS, ECoG, depth electrodes and animal invasive neurophysiology. User-Friendly Application for MEG/EEG Analysis. | MEG, EEG, data, magnetoencephalography, electroencephalography, visualization, processing, analysis, brain, recording, fNIRS, ECoG, electrophysiology |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: OpenMEEG is related to: Open MEG Archive is related to: MATLAB has parent organization: University of Southern California; Los Angeles; USA |
NIBIB R01 EB002010; NIBIB R01 EB009048; NIBIB R01 EB000473; NIBIB R01 EB026299; CNRS ; McGill University |
PMID:21584256 | Free, Available for download, Freely available | nif-0000-10267 | http://www.nitrc.org/projects/bst, https://github.com/brainstorm-tools/brainstorm3 | SCR_001761 | brainstorm3 | 2026-08-12 10:48:28 | 622 | ||||
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Camino Resource Report Resource Website 50+ mentions |
Camino (RRID:SCR_001638) | Camino | software toolkit, image processing software, software application, data processing software, software resource | Free, open-source, object-oriented software package for analysis and reconstruction of Diffusion MRI data, tractography and connectivity mapping. The toolkit implements standard techniques, such as diffusion tensor fitting, mapping fractional anisotropy and mean diffusivity, deterministic and probabilistic tractography. It also contains more specialized and cutting-edge techniques, such as Monte-Carlo diffusion simulation, multi-fibre and HARDI reconstruction techniques, multi-fibre PICo, compartment models, and axon density and diameter estimation. Camino has a modular design to enable construction of processing pipelines that include modules from other software packages. The toolkit is primarily designed for unix platforms and structured to enable simple scripting of processing pipelines for batch processing. Most users use linux, MacOS or a unix emulator like cygwin running under windows. However, the core code is written in Java and thus is simple to call from other platforms and programming environments, such as matlab running under unix or windows. | diffusion mri, reconstruction, processing, dti, tractography, connectivity mapping |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Diffusion MRI of Traumatic Brain Injury is related to: CAMINO-TRACKVIS is related to: Diffusion Tensor Imaging ToolKit has parent organization: University College London; London; United Kingdom |
Free, Available for download, Freely available | nlx_153907 | http://www.nitrc.org/projects/camino | SCR_001638 | UCL Camino Diffusion MRI Toolkit | 2026-08-12 10:48:26 | 63 | ||||||
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MACH 1.0 Resource Report Resource Website 50+ mentions |
MACH 1.0 (RRID:SCR_001759) | data processing software, data analysis software, software resource, software application | A Markov Chain based software tool for haplotyping, genotype imputation and disease association analysis that can resolve long haplotypes or infer missing genotypes in samples of unrelated individuals. | gene, genetic, genomic, haplotype, genotype, genomic analysis, imaging genomics, imputation, snp, gene, haplotyping, sequence |
is listed by: OMICtools is listed by: Genetic Analysis Software is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Mach2dat has parent organization: University of Michigan; Ann Arbor; USA |
PMID:21058334 PMID:19715440 |
Free | nlx_154202, OMICS_00064 | SCR_001759 | MArkov Chain Haplotyper MINIMAC, MArkov Chain Haplotyping | 2026-08-12 10:48:28 | 58 | |||||||
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NeuroMorpho.Org Resource Report Resource Website 100+ mentions |
NeuroMorpho.Org (RRID:SCR_002145) | service resource, data or information resource, database, data repository, storage service resource | Centrally curated inventory of digitally reconstructed neurons associated with peer-reviewed publications that contains some of the most complete axonal arborizations digitally available in the community. Each neuron is represented by a unique identifier, general information (metadata), the original and standardized ASCII files of the digital morphological reconstruction, and a set of morphometric features. It contains contributions from over 100 laboratories worldwide and is continuously updated as new morphological reconstructions are collected, published, and shared. Users may browse by species, brain region, cell type or lab name. Users can also download morphological reconstructions for research and analysis. Deposition and distribution of reconstruction files ultimately prevents data loss. Centralized curation and annotation aims at minimizing the effort required by data owners while ensuring a unified format. It also provides a one-stop entry point for all available reconstructions, thus maximizing data visibility and impact. | neuron, morphological reconstruction, morphometry, axonal arborization, digital neuronal reconstruction, neuronal reconstruction, neuronal morphology, data sharing, annotation, brain region, neocortex, digital reconstruction, neurogenetics, neurochemistry, neuroscience, neurology, FASEB list |
is used by: NIF Data Federation is used by: BICCN is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: DONE: Detection of Outlier NEurons is related to: NIF Literature is related to: Computational Neurobiology and Imaging Center is related to: Integrated Manually Extracted Annotation is related to: xyz2swc is related to: Allen Institute for Brain Science has parent organization: George Mason University; Virginia; USA is parent organization of: NeuroMorpho.Org species ontology is parent organization of: NeuroMorpho.Org species ontology old |
NINDS R01 NS39600; MURI ONR N000141010198 |
PMID:17728438 PMID:16552417 PMID:18949582 |
Free, Available for download, Freely available | nif-0000-00006, r3d100010107 | http://www.nitrc.org/projects/neuromorpho_org, http://neuromorpho.org/, https://doi.org/10.17616/R3WW2K | SCR_002145 | Neuro Morpho, NeuroMorpho.org, NeuroMorpho | 2026-08-12 10:48:32 | 123 | |||||
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ITK-SNAP Resource Report Resource Website 1000+ mentions |
ITK-SNAP (RRID:SCR_002010) | segmentation software, image analysis software, software application, data processing software, software resource | Open source interactive software application for three dimentional medical images, manual delineation of anatomical regions of interest, and performing automatic image segmentation. Used for delineating anatomical structures and regions in MRI, CT and other 3D biomedical imaging data.WebGL-based viewer for volumetric data. It is capable of displaying arbitrary (non axis-aligned) cross-sectional views of volumetric data, as well as 3-D meshes and line-segment based models (skeletons). | medical, image, segmentation, delineating, anatomical, structure, region, MRI, CT, 3D image, data |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps is related to: neurodebian is related to: AHEAD is related to: LiverSegm is related to: Waxholm Space Atlas of the Sprague Dawley Rat Brain is related to: Waxholm Space has parent organization: University of Pennsylvania; Philadelphia; USA |
NIBIB R01 EB014346 | PMID:29946897 | Free, Available for download, Freely available | nif-0000-00317 | https://github.com/google/neuroglancer, https://opensource.google.com/projects/neuroglancer | SCR_002010 | 2026-08-12 10:48:30 | 2647 | ||||||
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Group ICA of fMRI Toolbox Resource Report Resource Website 1000+ mentions |
Group ICA of fMRI Toolbox (RRID:SCR_001953) | GIFT | image analysis software, software toolkit, software application, data processing software, software resource | Software MATLAB toolbox which implements multiple algorithms for independent component analysis and blind source separation of group (and single subject) functional magnetic resonance imaging data. GIFT works on MATLAB 6.5 and higher. Many ICA algorithms were generously contributed by Dr. Andrzej Cichocki. | independent component analysis, matlab, magnetic resonance, fmri, algorithm |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Group ICA Of EEG Toolbox has parent organization: MIALAB - Medical Image Analysis Lab |
NIBIB 1R01EB000840 | PMID:18165105 | Free, Available for download, Freely available | SCR_024416, nif-0000-00309 | http://www.nitrc.org/projects/gift | http://mialab.mrn.org/software/gift/ | SCR_001953 | Group ICA Of fMRI Toolbox (GIFT) | 2026-08-12 10:48:30 | 1468 | |||
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OBART Resource Report Resource Website 1+ mentions |
OBART (RRID:SCR_001903) | OBART | data or information resource, atlas, web application, software resource | Tool that provides an interactive method to examine quantitative relationships between brain regions defined by different digital atlases or parcellation methods. Its current focus is for human brain imaging, though the techniques generalize to other domains. The method offers a quantitative answer to the nomenclature problem in neuroscience by comparing brain parts on the basis of their geometrical definitions rather than on the basis of name alone. Thus far these tools have been used to quantitatively compare eight distinct parcellations of the International Consortium for Brain Mapping (ICBM) single-subject template brain, each created using existing atlasing methods. This resources provides measures of global and regional similarity, and offers visualization techniques that allow users to quickly identify the correspondences (or lack of correspondences) between regions defined by different atlases. | atlas, brain, clinical, mapping, meta-analysis, neuroscience, visualization, label |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Brain Architecture Project has parent organization: Boston University; Massachusetts; USA |
NIMH 5R01MH084802 | PMID:19787067 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10473 | http://www.nitrc.org/projects/obart | http://obart.brainarchitecture.org | SCR_001903 | The Online Brain Atlas Reconciliation Tool, Online Brain Atlas Reconciliation Tool | 2026-08-12 10:48:29 | 2 | |||
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Multiple Correlation Function Tool Resource Report Resource Website |
Multiple Correlation Function Tool (RRID:SCR_002321) | Multiple Correlation Function Tool | simulation software, software resource, software application | Software tool that provides a convenient environment to simulate NMR diffusion in closed pores. It builds on the eigenfunction expansion of the magnetization. | matlab, magnetic resonance | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | BSD/MIT-Style Open unspecified license License | nlx_155670 | SCR_002321 | 2026-08-12 10:48:34 | 0 | ||||||||
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MisterI Resource Report Resource Website 1+ mentions |
MisterI (RRID:SCR_002317) | Mr. I, Mr I | data visualization software, image processing software, software application, data processing software, software resource | A powerful and modular medical image viewer/editor. It should be particularly useful to Undergraduates, Postdocs and Researchers in Medical Imaging to visualize data and to easily make attractive figures (for papers or presentations). It will also in a near future offer a number of advanced algorithms for medical image processing. Look at the video to get an idea ! http://www.benoitscherrer.com/MisterI/videos.html | c++, mgh/mgz, magnetic resonance, nifti, nrrd, visualization | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Cardware, Http://www.nitrc.org/include/glossary.php#697 | nlx_155666 | SCR_002317 | 2026-08-12 10:48:34 | 1 |
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