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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Website Status Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
MoTrak Head Motion Tracking System
 
Resource Report
Resource Website
1+ mentions
MoTrak Head Motion Tracking System (RRID:SCR_009607) MoTrak software resource, resource Designed for use in an MRI simulator, MoTrak software uses Ascension Technology?s Flock of Birds. The sensor attaches to the subject?s head and determines the position of the head in space relative to the transmitter. The sensor records angular rotations as well as positional displacements from an initially calibrated position. This information is displayed and logged by the program in real-time, allowing observation of head motion in an MRI simulator. In the simulator, the participant can simultaneously be habituated to the MRI environment, while being trained to remain still via feedback from the MoTrak system. experiment control, hardware, microsoft, magnetic resonance, training, win32 (ms windows), windows, windows vista, windows xp, instrument, equipment is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) nlx_155815 http://www.nitrc.org/projects/motrak SCR_009607 MoTrak - Head Motion Tracking System 2026-02-14 02:04:49 3
volBrain
 
Resource Report
Resource Website
1+ mentions
volBrain (RRID:SCR_021020) software resource Software tool as MRI brain segmentation system to obtain automatically volumetric brain information from RI data. Works in automatic manner and is able to provide brain structure volumes without any human interaction. MRI brain volumetry system, segmentation system, volumetric brain information, MRI data, is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) PMID:27512372 Free, Available for download, Freely available SCR_021020 volBrain: online MRI segmentation, MRI Brain Volumetry System 2026-02-14 02:04:13 3
CoCoMac
 
Resource Report
Resource Website
50+ mentions
CoCoMac (RRID:SCR_007277) CoCoMac data or information resource, database Online access (html or xml) to structural connectivity ("wiring") data on the Macaque brain. The database has become by far the largest of its kind, with data extracted from more than four hundred published tracing studies. The main database, contains data from tracing studies on anatomical connectivity in the macaque cerebral cortex. Also available are a variety of tools including a graphical simulation workbench, map displays and the CoCoMac-Paxinos-3D viewer. Submissions are welcome. To overcome the problem of divergent brain maps ORT (Objective Relational Transformation) was developed, an algorithmic method to convert data in a coordinate- independent way based on logical relations between areas in different brain maps. CoCoMac data is used to analyze the organization of the cerebral cortex, and to establish its structure- function relationships. This includes multi-variate statistics and computer simulation of models that take into account the real anatomy of the primate cerebral cortex. This site * Provides full, scriptable open access to the data in CoCoMac (you must adhere to the citation policy) * Powers the graphical interface to CoCoMac provided by the Scalable Brain Atlas * Sports an extensive search/browse wizard, which automatically constructs complex search queries and lets you further explore the database from the results page. * Allows you to get your hands dirty, by using the custom SQL query service. * Displays connectivity data in tabular form, through the axonal projections service. CoCoMac 2 was initiated at the Donders Institute for Brain, Cognition and Behaviour, and is currently supported by the German neuroinformatics node and the Computational and Systems Neuroscience group at the Juelich research institute. brain, macaque, non-human primate, connectivity, microcircuitry, prefrontal cortex, neural network, structure, function, neuroanatomy, brain circuitry, axonal projection, data repository, visualization, atlas application, computational neuroscience, magnetic resonance, ontology, php, tractography, web environment, software, FASEB list is used by: NIF Data Federation
is used by: Integrated Nervous System Connectivity
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Scalable Brain Atlas
has parent organization: German Neuroinformatics Node (G-Node)
is parent organization of: CoCoMac-Paxinos3D viewer
DFG ;
Heinrich-Heine University of Dusseldorf; Dusseldorf; Germany ;
Wellcome Trust
PMID:23293600
PMID:11545697
PMID:15319511
PMID:15971361
PMID:10703043
Open Access nif-0000-00022 http://www.nitrc.org/projects/cocomac
http://134.95.56.239/home.asp
http://cocomac.org/, http://cocomac.g-node.org/drupal/ SCR_007277 CoCoMac Brain Connectivity Database, Collations of Connectivity Data on the Macaque Brain, CoCoMac (Collations of Connectivity Data on the Macaque Brain) 2026-02-14 02:06:36 57
Open Access Series of Imaging Studies
 
Resource Report
Resource Website
100+ mentions
Open Access Series of Imaging Studies (RRID:SCR_007385) OASIS data or information resource, database Project aimed at making neuroimaging data sets of brain freely available to scientific community. By compiling and freely distributing neuroimaging data sets, future discoveries in basic and clinical neuroscience are facilitated. early, stage, alzheimer, disease, mri, fmri, image, brain, dicom, magnetic, resonance, collection, data, FASEB list is used by: NIF Data Federation
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Automatic Registration Toolbox
is related to: 2012 MICCAI Multi-Atlas Labeling Challenge Data
has parent organization: Howard Hughes Medical Institute
has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA
has parent organization: Biomedical Informatics Research Network
is parent organization of: Cover Pages
Alzheimer's disease, Dementia, Normal, Nondemented, Aging NIA P50 AG05681;
NIA P01 AG03991;
NIA R01 AG021910;
NIMH P50 MH071616;
NCRR U24 RR021382;
NIMH R01 MH56584
Free, Acknowledgement required r3d100012182, nif-0000-00387 http://www.nitrc.org/projects/oasis
https://doi.org/10.17616/R3RS8K
SCR_007385 The Open Access Series of Imaging Studies, Open Access Series of Imaging Studies, OASIS 2026-02-14 02:06:36 299
BrainColor: Collaborative Open Labeling Online Resource
 
Resource Report
Resource Website
1+ mentions
BrainColor: Collaborative Open Labeling Online Resource (RRID:SCR_006377) BrainCOLOR knowledge environment, data or information resource This resource was created to host descriptions of protocols, definitions and rules for the reliable identification and localization of human brain anatomy and discussions of best practices in brain labeling. Project for manual anatomical labeling of human brain MRI data, and the visual presentation of labeled brain images. atlas, curation, map, mapping, mri, image, brain, label, neurolabel, neuroanatomy is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Neuromorphometrics
has parent organization: Columbia University; New York; USA
NIMH R43 MH084358;
NIMH MH084029
Free, Available for download, Freely available nif-0000-07727 https://www.binarybottle.com/braincolor/
https://github.com/binarybottle/braincolor
http://www.braincolor.org/ SCR_006377 Neurolabels, Collaborative Open Labeling Online Resource, Neuroanatomical Labeling Methods 2026-02-14 02:05:26 3
Internet Brain Volume Database
 
Resource Report
Resource Website
1+ mentions
Internet Brain Volume Database (RRID:SCR_002060) IBVD data or information resource, database A database of brain neuroanatomic volumetric observations spanning various species, diagnoses, and structures for both individual and group results. A major thrust effort is to enable electronic access to the results that exist in the published literature. Currently, there is quite limited electronic or searchable methods for the data observations that are contained in publications. This effort will facilitate the dissemination of volumetric observations by making a more complete corpus of volumetric observations findable to the neuroscience researcher. This also enhances the ability to perform comparative and integrative studies, as well as metaanalysis. Extensions that permit pre-published, non-published and other representation are planned, again to facilitate comparative analyses. Design strategy: The principle organizing data structure is the "publication". Publications report on "groups" of subjects. These groups have "demographic" information as well as "volume" information for the group as a whole. Groups are comprised of "individuals", which also have demographic and volume information for each of the individuals. The finest-grained data structure is the "individual volume record" which contains a volume observation, the units for the observation, and a pointer to the demographic record for individual upon which the observation is derived. A collection of individual volumes can be grouped into a "group volume" observation; the group can be demographically characterized by the distribution of individual demographic observations for the members of the group. anatomy, volume, dsm-iv, normal, schizophrenia, autistic disorder, bipolar disorder, major depressive disorder, alzheimer's disease, attention deficit-hyperactivity disorder, alcohol dependence, dementia, traumatic brain injury, borderline personality disorder, obsessive-compulsive disorder, asperger syndrome, brain, brain structure, in vivo, ex vivo, male, female, gorilla beringei beringei, pongo pygmaeus, volumetric analysis is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: NIF Data Federation
is related to: Integrated Manually Extracted Annotation
has parent organization: Harvard Medical School; Massachusetts; USA
Normal, Alzheimers disease, Seizure, Complex febrile seizure, Holoprosencephaly, Alcohol dependence, Bipolar Disorder, Traumatic brain injury, Schizophrenia The Human Brain Project ;
NINDS NS034189
PMID:21931990 Free, Available for download, Freely available nif-0000-00033 http://www.nitrc.org/projects/ibvd http://www.cma.mgh.harvard.edu/ibvd/ SCR_002060 2026-02-14 02:05:37 4
EPILEPSIE database
 
Resource Report
Resource Website
1+ mentions
EPILEPSIE database (RRID:SCR_003179) data or information resource, database A comprehensive database for human surface and intracranial EEG data that is suitable for a broad range of applications e.g. of time series analyses of brain activity. Currently, the EU database contains annotated EEG datasets from more than 200 patients with epilepsy, 50 of them with intracranial recordings with up to 122 channels. Each dataset provides EEG data for a continuous recording time of at least 96 hours (4 days) at a sample rate of up to 2500 Hz. Clinical patient information and MR imaging data supplement the EEG data. The total duration of EEG recordings included execeeds 30000 hours. The database is composed of different modalities: Binary files with EEG recording / MR imaging data and Relational database for supplementary meta data. seizure, electroencephalography, mri, eeg recording, metadata, intracranial, surface, time series analyses, brain activity, brain, clinical, image collection is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: University of Freiburg; Baden-Wurttemberg; Germany
Epilepsy Excellence Initiative of the German Federal and State Governments ;
European Union 211713;
BMBF 01GQ0420;
German Science Foundation Ti 315/4-2
PMID:22738131 Free, Freely available nlx_156892 http://www.nitrc.org/projects/epilepsiaedb http://epilepsy-database.eu/project/ http://www.epilepsiae.eu http://epilepsy-database.eu SCR_003179 EPILEPSIAE Project Database, European Epilepsy Database 2026-02-14 02:06:11 3
Paradigm
 
Resource Report
Resource Website
50+ mentions
Paradigm (RRID:SCR_009634) Paradigm software resource Software application for millisecond accurate experimental control for cognitive neuroscience, psychology and linguistics research. Presents text, images, sounds, movies, self-paced reading trials and rating scales. An integrated Python scripting API is available. Joystick and microphone response are available. Supports button boxes from PST, Cedrus, fORP and custom built response boxes. Paradigm can detect fMRI triggers through serial and parallel ports. Includes sample experiments that implement many of the most popular experiment designs., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. eeg, experimental control, eye tracking, hardware, microsoft, magnetic resonance, physiological recording, python, scanner, win32 (ms windows), experiment, experimental design, fmri, eye tracking device is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) THIS RESOURCE IS NO LONGER IN SERVICE nlx_155918 SCR_009634 Paradigm Experiment Builder 2026-02-14 02:07:09 61
Manually Labeled MRI Brain Scan Database
 
Resource Report
Resource Website
1+ mentions
Manually Labeled MRI Brain Scan Database (RRID:SCR_009604) data or information resource, database Collection of neuroanatomically labeled MRI brain scans, created by neuroanatomical experts. Regions of interest include the sub-cortical structures (thalamus, caudate, putamen, hippocampus, etc), along with ventricles, brain stem, cerebellum, and gray and white matter and sub-divided cortex into parcellation units that are defined by gyral and sulcal landmarks. collection, neuroanatomical, MRI, brain, scan, data, thalamus, caudate, putamen, hippocampus, ventricle, cerebellum, cortex is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: Neuromorphometrics
works with: MRI Neuroanatomy Labeling Services
works with: MRI Neuroanatomy Labeling Services
NIMH R43 MH60507;
NIMH R44 MH60507;
NIMH R43 MH084358
Commercially available nlx_155805 http://www.nitrc.org/projects/manuallabels SCR_009604 2026-02-14 02:06:11 1
Pediatric Imaging Neurocognition and Genetics
 
Resource Report
Resource Website
50+ mentions
Pediatric Imaging Neurocognition and Genetics (RRID:SCR_008953) PING data or information resource, database A large multi-site pediatric MRI and genetics data resource to facilitate studies of the genomic landscape of the developing human brain. It includes information about the developing mental and emotional functions of the children to understand the genetic basis of individual differences in brain structure and connectivity, cognition, and personality. Investigators on the project are studying 1400 children between the ages of 3 and 20 years so that links between genetic variation and developing patterns of brain connectivity can be examined. Investigators interested in the effects of a particular gene will be able to search the database for any brain areas or connections between areas that differ as a function of variation in a particular gene, and also to determine if the genes appear to affect the course of brain development at some point during childhood. A data exploration tool has been created for mapping and analyzing MRI data sets collected for PING and related developmental studies. Approved investigators will be able to view raw image sets and derived 3D brain maps of MRI and DTI data, conduct hypothesis testing, and graph brain area measures as they change across the time course of development. PING Cores * Coordinating Core: Functions include project management, screening of participants and maintaining the database * Neuroimaging Core: applying a standardized high-resolution structural MRI protocol involving 3-D T1-weighted scans, a T2-weighted volume, and a set of diffusion-weighted scans with multiple b values and diffusion directions, scans to estimate MRI relaxation rates, and gradient echo EPI scans for resting state fMRI. Importantly, adaptive motion compensation, using ����??PROMO����??, a novel real-time motion correction algorithm will be used. Specific PING protocols for each scanner manufacturer: ** PING MRI Protocol - GE ** PING MRI Protocol - Philips ** PING MRI Protocol - Siemens * Assessment Core: Cognitive assessments for the PING project are conducted using the NIH Toolbox for Cognition. * Genomics Core: functions as a central repository for receipt of saliva samples collected for each study participant. Once received, samples are catalogued, maintained, and DNA is extracted using state-of-the-field laboratory techniques. Ultimately, genome-wide genotyping is performed on the extracted DNA using the Illumina Human660W-Quad BeadChip. PING involves 10 sites throughout the country including UCSD, University of Hawaii, Scripps Genomics, UCLA, UC Davis, Kennedy Krieger Institute/Johns Hopkins, Sacker Institute/Cornell University, University of Massachusetts, Massachusetts General Hospital/Harvard, and Yale. Families who may want to participate in the study, or others who want to know more about it, may email questions to ping (at) ucsd.edu. pediatric, neuroimaging, genetics, child, early adult human, adolescent, genetic variant, magnetic resonance imaging, brain, gene, brain structure, connectivity, function, brain development, cognition, experimental protocol, saliva, dna, diffusion tensor imaging, image, genotype, dicom, imaging genomics, magnetic resonance, nifti, FASEB list is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: NIH Toolbox - Assessment of Neurological and Behavioral Function
has parent organization: University of California at San Diego; California; USA
has parent organization: Multimodal Imaging Laboratory
NIDA ;
ARRA ;
NICHD
Data Use Agreement required. nlx_151904 http://www.nitrc.org/projects/ping http://ping.chd.ucsd.edu/ SCR_008953 PING Study, Pediatric Imaging Neurocognition and Genetics (PING) 2026-02-14 02:06:36 76
Preprocessed Connectomes Project
 
Resource Report
Resource Website
1+ mentions
Preprocessed Connectomes Project (RRID:SCR_014162) PCP data or information resource, database A project which systematically preprocess the data from the 1000 Functional Connectomes Project (FCP) and International Neuroimaging Data-sharing Initiative (INDI) and openly share the results. Data is currently hosted in an Amazon Web Services Public S3 Bucket and at NITRC. database, neuroimaging data, preprocessing is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is affiliated with: 1000 Functional Connectomes Project
Public, Acknowledgement requested https://preprocessed-connectomes-project.github.io SCR_014162 2026-02-14 02:06:20 1
Parkinsons Disease Discovery Database
 
Resource Report
Resource Website
Parkinsons Disease Discovery Database (RRID:SCR_014160) data or information resource, database THIS RESOURCE IS NO LONGER IN SERVICE, documented Jan. 5, 2016. Tools will be available for biomedical data mining and visualization as well as linkages to Google Maps and other online resources. parkinson disease, database is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) THIS RESOURCE IS NO LONGER IN SERVICE SCR_014160 2026-02-14 02:06:51 0
Altered States Database
 
Resource Report
Resource Website
1+ mentions
Altered States Database (RRID:SCR_016350) ASDB data or information resource, database Database as an open science framework with a scientific data extracted from scientific literature about various altered states of consciousness assessed with questionnaires. Used to compare what experiences are elicited by different drugs and non-pharmacological methods that induce altered states to help to understand human consciousness functions. Is listed by Neuroimaging Informatics Tools. altered, state, database, comprised, questionnaire, data, consciousness, neuroscience is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) Wikimedia Foundation ;
Stifterverband ;
VolkswagenStiftung
DOI:10.17605/OSF.IO/8MBRU Free, Freely available http://alteredstatesdb.org/#focus SCR_016350 Altered States Database 2026-02-14 02:06:47 2
C-PAC
 
Resource Report
Resource Website
1+ mentions
C-PAC (RRID:SCR_000862) C-PAC software application, data processing software, software resource, image analysis data, workflow software A configurable, open-source, Nipype-based, automated processing pipeline for resting state functional MRI (R-fMRI) data, for use by both novice and expert users. C-PAC was designed to bring the power, flexibility and elegance of the Nipype platform to users in a plug and play fashion?without requiring the ability to program. Using an easy to read, text-editable configuration file, C-PAC can rapidly orchestrate automated R-fMRI processing procedures, including: - quality assurance measurements - image preprocessing based upon user specified preferences - generation of functional connectivity maps (e.g., correlation analyses) - customizable extraction of time-series data - generation of local R-fMRI metrics (e.g., regional homogeneity, voxel-matched homotopic connectivity, fALFF/ALFF) C-PAC makes it possible to use a single configuration file to launch a factorial number of pipelines differing with respect to specific processing steps. computational neuroscience, connectivity analysis, macos, magnetic resonance, nifti, nipype, posix/unix-like, python, workflow, resting state functional mri, fmri is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: 1000 Functional Connectomes Project
Open source nlx_155720 http://www.nitrc.org/projects/cpac SCR_000862 Configurable Pipeline for the Analysis of Connectomes 2026-02-15 09:18:00 8
Philips Users Community
 
Resource Report
Resource Website
1+ mentions
Philips Users Community (RRID:SCR_001438) Philips Users Community data or information resource, community building portal, portal Communnity project to help support the efforts of investigators using Philips Healthcare systems. This clearingsite helps users find forums, mailinglists, etc. that support this community. If you have suggestions for inclusion, let the project admin know! community, dicom, magnetic resonance, nifti, philips par/rec is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) Free, Freely Available nlx_155922 SCR_001438 2026-02-15 09:18:06 1
SINOMO
 
Resource Report
Resource Website
SINOMO (RRID:SCR_005286) SINOMO software application, data processing software, data analysis software, software resource Analysis-tool which identifies singular node motifs in a network. Network nodes can be described by node-motifs. It is an improvement to the method described in Costa et al. (2009). network, network analysis, network motif, computational neuroscience, eeg, meg, electrocorticography is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: Newcastle University; Newcastle upon Tyne; United Kingdom
EPSRC EP/G03950X/1;
EPSRC EP/E002331/1;
Korea Ministry of Education Science and Technology R32-10142;
CNPq 301303/06-1;
FAPESP 05/00587-5;
FAPESP 2007/50633-9
PMID:21297963 Creative Commons Attribution-NonCommercial License nlx_144325 http://www.nitrc.org/projects/sinomo SCR_005286 SINOMO (SIngular NOde MOtifs), Singular Node Motifs, SIngular NOde MOtifs 2026-02-15 09:18:56 0
NIRS-SPM
 
Resource Report
Resource Website
100+ mentions
NIRS-SPM (RRID:SCR_009630) NIRS-SPM software application, data processing software, data analysis software, software resource A SPM and MATLAB-based software package for statistical analysis of near-infrared spectroscopy (NIRS) signals. Based on the general linear model (GLM), and Sun's tube formula / Lipschitz-Killing curvature (LKC) based expected Euler characteristics, NIRS-SPM not only provides activation maps of oxy-, deoxy-, and total-hemoglobin, but also allows for super-resolution activation localization. Additional features, including a wavelet-minimum description length detrending algorithm and cerebral metabolic rate of oxygen (CMRO2) estimation without hypercapnia, were implemented in the NIRS-SPM software package., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. optical imaging, near-infrared spectroscopy, spm, matlab is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: SPM
has parent organization: Korea Advanced Institute of Science and Technology; Daejeon; South Korea
THIS RESOURCE IS NO LONGER IN SERVICE nlx_155885 http://www.nitrc.org/projects/nirs_spm SCR_009630 2026-02-15 09:19:46 134
NITRC Community
 
Resource Report
Resource Website
NITRC Community (RRID:SCR_009631) NITRC Community data or information resource, community building portal, portal NITRC-wide community facilities: Forums, Wiki, Tracker, and News. forum, event, news, funding, wiki, document, job resource is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: NeuroImaging Tools and Resources Collaboratory (NITRC)
nlx_155888 SCR_009631 2026-02-15 09:20:13 0
MACH
 
Resource Report
Resource Website
500+ mentions
MACH (RRID:SCR_009621) software application, data processing software, data analysis software, software resource QTL analysis based on imputed dosages/posterior_probabilities. genetic association, genomic analysis, imaging genomics, snp, gene, quantitative trait analysis, bio.tools is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is listed by: Debian
is listed by: bio.tools
is listed by: SoftCite
has parent organization: University of Michigan; Ann Arbor; USA
PMID:21058334
PMID:19715440
DOI:10.1002/gepi.20533
Free, Non-commercial, Acknowledgement requested nlx_155856, biotools:mach http://www.nitrc.org/projects/mach
https://bio.tools/mach
https://sources.debian.org/src/mach-haplotyper/ SCR_009621 mach2qtl, MaCH 2026-02-15 09:20:13 925
SCRalyze
 
Resource Report
Resource Website
10+ mentions
SCRalyze (RRID:SCR_002542) SCRalyze software application, data processing software, data analysis software, software resource A powerful software for model-based analysis of peripheral psychophysiology (e.g. skin conductance, heart rate, pupil size etc.). General linear modelling and dynamic causal modelling of these signals provide for inference on neural states/processes. SCRalyze includes flexible data import and display, statistical inference and results display and export. Easy programming of add-ons for new data formats, signal channels, and models. eeg, meg, electrocorticography, matlab, modeling, os independent, quantification, time domain analysis is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: SourceForge
Free, Available for download, Freely available nlx_155950 http://www.nitrc.org/projects/scralyze SCR_002542 SCRalyze - A matlab environment for model-based psychophysiology 2026-02-15 09:18:20 17

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