Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Neuron-C Resource Report Resource Website 1+ mentions |
Neuron-C (RRID:SCR_014148) | simulation software, software application, software resource, source code | A simulation language for modeling biophysically realistic neural circuits (1 to 10,000 neurons) and simulating physiology experiments on it. Programs for plotting and displaying data are included. | simulation, simulation language, source code, neural circuit |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Pennsylvania; Philadelphia; USA |
Available to the research community | http://retina.anatomy.upenn.edu/~rob/neuronc.html | SCR_014148 | NeuronC Neural Simulation Language, Neuron C Neural Simulation Language, NeuronC | 2026-09-19 12:52:52 | 7 | ||||||||
|
NIH Pediatric MRI Data Repository Resource Report Resource Website |
NIH Pediatric MRI Data Repository (RRID:SCR_014149) | NIHPD | data or information resource, database, image collection | A database which contains longitudinal structural MRIs, spectroscopy, DTI and correlated clinical/behavioral data from approximately 500 healthy, normally developing children, ages newborn to young adult. | database, image collection, structural mri, dti, spectroscopy, human brain, child |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National Institutes of Health |
NICHD ; National Institute on Drug Abuse ; NIMH ; NINDS |
Available to the research community, Access must be granted | http://pediatricmri.nih.gov/nihpd/info/index.html | SCR_014149 | Pediatric MRI Data Repository, NIH MRI Study of Normal Brain Development Pediatric MRI Data Repository | 2026-09-19 12:52:52 | 0 | ||||||
|
MISST - Microstructure Imaging Sequence Simulation ToolBox Resource Report Resource Website 1+ mentions |
MISST - Microstructure Imaging Sequence Simulation ToolBox (RRID:SCR_014140) | MISST | simulation software, software application, software resource, software toolkit | A practical diffusion MRI simulator for development, testing, and optimisation of novel MR pulse sequences for microstructure imaging. MISST is based on a matrix method approach and simulates the signal for a large variety of pulse sequences and tissue models. It is designed for diffusion MRI researchers who are interested in understanding and developing diffusion pulse sequences for imaging microstructure. | simulation software, software toolkit, mri simulator, pulse sequence, tissue model, imaging, microstructure |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University College London; London; United Kingdom |
Available to the research community | http://mig.cs.ucl.ac.uk/index.php?n=Tutorial.MISST | SCR_014140 | Microstructure Imaging Sequence Simulation Toolbox | 2026-09-19 12:52:52 | 2 | |||||||
|
GazeReader Resource Report Resource Website 1+ mentions |
GazeReader (RRID:SCR_014112) | data acquisition software, data processing software, software application, software resource, software toolkit | A toolbox for a point-process derived GLM analysis of eye tracking data in Matlab. Data loading, model specification, fitting and review are organized into a sequence of events, each of which is handled by a separate module in the toolbox. The graphical interface was created using the Matlab graphical user interface development environment. | software toolkit, data acquisition software, eye tracking, glm analysis, matlab |
uses: MATLAB is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Iowa; Iowa; USA |
Free for non-commercial use only | http://www.nitrc.org/projects/gazereader | SCR_014112 | 2026-09-19 12:52:52 | 1 | |||||||||
|
gCCA Resource Report Resource Website 10+ mentions |
gCCA (RRID:SCR_014113) | data analysis software, data processing software, software application, software resource | A multivariate method for fMRI data analysis based on generalized canonical correlation analysis (gCCA) to maximize SPM reproducibility without adopting any model for the hemodynamic response or other temporal brain responses. For multiple subjects, gCCA explores a broad range of temporal responses in fMRI time-series space while maximizing the mean of correlation coefficients between the pair-wise spatial maps of the subjects. | data analysis software, multivariate method, fmri data analysis |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Toronto; Ontario; Canada |
University of Tehran 8101079/01/01; CIHR MOP 84483; Heart and Stroke Foundation of Ontario |
Available for download | SCR_014113 | 2026-09-19 12:52:52 | 17 | |||||||||
|
GraphVar: A toolbox for comprehensive graph analyses of functional brain connectivity Resource Report Resource Website 10+ mentions |
GraphVar: A toolbox for comprehensive graph analyses of functional brain connectivity (RRID:SCR_014117) | data analysis software, data processing software, software application, software resource, software toolkit | A user-friendly graphical-user-interface (GUI)-based toolbox (MATLAB) for comprehensive graph-theoretical analyses of brain connectivity, including network construction and characterization, statistical analysis on network topological measures, and interactive exploration of results. | software toolbox, data analysis, brain connectivity, graph theoretical analysis, statistical analysis, network construction, network characterization |
uses: MATLAB is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Charite - Universitatsmedizin Berlin; Berlin; Germany |
PMID:25725332 | Available for download | http://www.rfmri.org/GraphVar | SCR_014117 | GraphVar | 2026-09-19 12:52:52 | 34 | |||||||
|
HAMMER: Deformable Registration Resource Report Resource Website |
HAMMER: Deformable Registration (RRID:SCR_014118) | data processing software, image processing software, software application, software resource | A software package which performs high-dimensional warping of brain images. Standard voxel-based analysis can be applied to these tissue density maps, in order to examine regional volumetrics, effects of disease, or correlations with clinical measurements. | image processing, software package, warp, brain image | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Available for download | SCR_014118 | 2026-09-19 12:52:52 | 0 | ||||||||||
|
MGA - Multimodal Glioma Analysis Resource Report Resource Website 1+ mentions |
MGA - Multimodal Glioma Analysis (RRID:SCR_014122) | MGA | data processing software, image analysis software, software application, software resource, standalone software, workflow software | An MRI preprocessing pipeline built with HOF (Heterogeneous Optimization Framework) methodology. MGA prepares neuro-oncology clinical imaging studies for scientific analysis in both longitudinal and cross-sectional studies. It works on DICOM images from a single MRI study and includes perfusion (DSC sequence based) analysis and DTI analysis. MGA spatially co-registers all study images to an atlas template and to a template image within the study. | image analysis, workflow software, standalone, pipeline, mri, heterogeneous optimization framework, clinical image study, image | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Available to the research community | SCR_014122 | Multimodal Glioma Analysis | 2026-09-19 12:52:52 | 1 | ||||||||
|
Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0 Resource Report Resource Website |
Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0 (RRID:SCR_014127) | 3d visualization software, data processing software, data visualization software, software application, software resource | A tractography algorithm for HARDI which provides a relatively accurate and efficient fiber tracking mechanism by reconstructing a bi-tensor model for underlying signals and exploiting intrinsic operations on the space of diffusion tensors. Given HARDI data sets, IUKF is capable of tracking in the presence of complex local geometries, such as crossing and kissing fibers. Reconstruction is only performed at the voxels along estimated fibers. | filter, data visualization software, 3d visualization, tractography, algorithm, fiber tracking, HARDI |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Florida; Florida; USA |
NINDS NS066340 | Available for download | http://www.cise.ufl.edu/~salehian/Softwares.html | SCR_014127 | IUKF Tractography Software v1.0, IUKF Tractography Software, Intrinsic Unscented Kalman Filter Tractography Software, Intrinsic Unscented Kalman Filter Tractography Software v1.0 | 2026-09-19 12:52:52 | 0 | |||||||
|
UNC-Wisconsin Neurodevelopment Rhesus MRI Database Resource Report Resource Website 1+ mentions |
UNC-Wisconsin Neurodevelopment Rhesus MRI Database (RRID:SCR_014177) | A macaque brain MRI database characterizing the normal postnatal macaque brain development. This longitudinal primate database was acquired from a cohort of healthy macaque monkeys ranging from a few week olds up to 3-year-old adolescents. Each scan consists of structural (both T1 and T2) and diffusion MRI. | macaque, brain development, postnatal, diffusion mri, structural mir |
uses: UNC Primate Brain Atlas uses: AutoSeg is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) |
Available to the research community | SCR_014177 | 2026-09-19 12:52:53 | 1 | |||||||||||
|
Turbo-BrainVoyager Resource Report Resource Website 1+ mentions |
Turbo-BrainVoyager (RRID:SCR_014175) | data processing software, data visualization software, image analysis software, software application, software resource, standalone software | A software package for the real-time analysis and dynamic visualization of functional magnetic resonance imaging data sets. It allows users to observe the working brain "online" by incrementally computing statistical maps as contrasts of a General Linear Model (GLM). The program also performs real-time pre-processing, including 3D motion correction, spatial Gaussian smoothing and temporal filtering (drift removal). | image analysis software, data visualization software, standalone software, neurofeedback, mri analysis |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is affiliated with: BrainVoyager has parent organization: Brain Innovation: Home of the BrainVoyager Product Family |
Public, Commercial | http://www.brainvoyager.com/TurboBrainVoyager.html | SCR_014175 | 2026-09-19 12:52:53 | 2 | |||||||||
|
Topographica Resource Report Resource Website 1+ mentions |
Topographica (RRID:SCR_014174) | simulation software, software application, software resource | A software package for computational modeling of neural maps developed as part of the NIMH Human Brain Project. Topographica focuses on the large-scale structure and function that is visible only when many thousands of such neurons are connected into topographic maps containing millions of connections. The software package provides a general-purpose framework for building models at this level, at an appropriate level of detail and complexity, as determined by the available computing power, phenomena of interest, and amount of biological data available for validation. It is intended to complement low-level neuron simulators that are available, such as General Neural Simulation System and NEURON. | computational modeling, neural map, simulation software, neuron |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: General Neural Simulation System is related to: NEURON |
NIMH Human Brain Project 1R01-MH66991 | SCR_014174 | 2026-09-19 12:52:53 | 5 | ||||||||||
|
Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND) Resource Report Resource Website 10+ mentions |
Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND) (RRID:SCR_014186) | FRIEND | data processing software, image processing software, software application, software resource, standalone software | A GUI-based software for real-time fMRI processing, multivoxel pattern decoding and neurofeedback. The package integrates routines for image preprocessing in real-time, ROI-based feedback and brain decoding-based feedback using the FSL and libSVM libraries. Users can create or employ pre-specified visual stimuli for neurofeedback experiments. FRIEND can be used as Windows standalone software or as a multiplatform toolbox (called FRIEND Engine). | real time, fmri, processing, neuro feedback, standalone software, toolbox, |
uses: FSL uses: LIBSVM is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) |
Public, Available to the research community, The community can contribute to this resource | SCR_014186 | 2026-09-19 12:52:53 | 13 | |||||||||
|
Functional Mixed Processes Models Resource Report Resource Website |
Functional Mixed Processes Models (RRID:SCR_014187) | FMPM | data analysis software, data processing software, software application, software resource, workflow software | A tool which implements a functional analysis pipeline for the joint analysis of longitudinally measured functional data and clinical data (for example age, gender and disease status). FMPM consists of a functional mixed effects model for characterizing the association of functional response with covariates of interest by incorporating complex spatial–temporal correlation structure, an efficient method for spatially smoothing varying coefficient functions, an estimation method for estimating the spatial– temporal correlation structure, a test procedure with local and global test statistics for testing hypotheses of interest associated with functional response, and a simultaneous confidence band for quantifying the uncertainty in the estimated coefficient functions. | workflow software, data analysis software, analysis pipeline, longitudinal, functional data, clinical data | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Public, Available to the research community | SCR_014187 | 2026-09-19 12:52:53 | 0 | |||||||||
|
XNBC Resource Report Resource Website |
XNBC (RRID:SCR_014182) | simulation software, software application, software resource | A full featured and extensible application which simulates biological neural networks using graphic tools which edit neurons and networks, run the simulation and analyze results. It is written in C and runs on Unix and Windows. It is specifically targeted for neuroscientists who are less experienced with computer programming. | simulation software, biological neuron network, neuron, graphic tool, unexperienced programmer, unexperienced with computers |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Sorbonne University; Paris; France |
Available to the research community | http://ticemed-sa.upmc.fr/xnbc/ | SCR_014182 | 2026-09-19 12:52:53 | 0 | |||||||||
|
Simulated DW-MRI Brain Data Sets for Quantitative Evaluation of Estimated Fiber Orientations Resource Report Resource Website 1+ mentions |
Simulated DW-MRI Brain Data Sets for Quantitative Evaluation of Estimated Fiber Orientations (RRID:SCR_014168) | data or information resource, image collection | This resource provides simulated DW-MRI brain images and quantitative tools for evaluating the performance of diffusion analysis methods in terms of fiber orientation estimation and false-positive/-negative fiber rates, which are of fundamental importance to tractography based studies. DW data was generated using a multi-tensor model at SNRs of 9, 18 and 36, for sets of 20, 30, 40, 60, 90 and 120 gradient directions. For each combination of SNR and gradient direction set, 10 realizations of data are provided. All data is simulated with a diffusion-weighting of b=1000, as is common for clinical acquisitions. | brain image, dw mri, diffusion analysis | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | SCR_014168 | 2026-09-19 12:52:53 | 1 | |||||||||||
|
SPIKECOR: fMRI tool for automated correction of head motion spikes Resource Report Resource Website 1+ mentions |
SPIKECOR: fMRI tool for automated correction of head motion spikes (RRID:SCR_014169) | This algorithm corrects for spikes in fMRI data, typically caused by abrupt head motion during scanning. It identifies outliers using Principal Component Analysis (PCA) in a sliding time-window; it is sensitive to global motion artifact, and stable against non-stationary signal changes. | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | SCR_014169 | 2026-09-19 12:52:53 | 2 | |||||||||||||
|
Prediction and Diagnosis for Depression and Schizophrenia Resource Report Resource Website |
Prediction and Diagnosis for Depression and Schizophrenia (RRID:SCR_014161) | data or information resource, portal, topical portal | A topical portal for the UAIS Lab of Lanzhou University which researches predicting depression and schizophrenia based on demographics and physiological information (EEG, ERPs, Genetics, MRI, fMRI, etc.). It also researches wearable bio-signal sensors and antennas, bio-signal processing, speech analysis, pervasive mental health, psycho-physiological computing, bioinformatics and multimodal data fusion and modeling. | topical portal, lab, depression, schizophrenia, demographic, physiological | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Depression, Schizophrenia | Public | http://www.nitrc.org/projects/zhangxw | SCR_014161 | UAIS Lab of Lanzhou University | 2026-09-19 12:52:53 | 0 | |||||||
|
MultiXplore Resource Report Resource Website 1+ mentions |
MultiXplore (RRID:SCR_014814) | data analysis software, data processing software, software application, software resource | Graphical user interface that has been implemented as a 3D Slicer plugin (scripted module). It serves to display a corresponding set of cortical regions from functional connectivity matrix in an explorable 3D scene that represents brain anatomical environment. In addition to grey matter regions, MultiXplore automatically finds and extracts deterministic fiber bundles which exist between selected region(s) and adds them to the 3D environment. This feature helps in generating region-based fiber bundles given a desired whole-brain tractography data. | gui, graphical user interface, cortical region, functional connectivity matrix, 3d, brain, grey matter, fiber bundle |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Western University; Ontario; Canada is a plug in for: 3D Slicer |
NSERC | Available for download | SCR_014814 | 2026-09-19 12:53:02 | 1 | |||||||||
|
Automatic Tractography-based Parcellation Pipeline Resource Report Resource Website 1+ mentions |
Automatic Tractography-based Parcellation Pipeline (RRID:SCR_014815) | ATPP | data processing software, software application, software resource, workflow software | Integrated pipeline for tractography-based brain parcellation with automatic processing and massive parallel computing. ATPP offers a CLI version for parcellating multiple brain regions and a GUI version for parcellating a specific brain region. " ATPP completely follows the scientific cultural shift to open science, which aims at making scientific research including journal papers, lab notes, data, and, of course, workflow tools, accessible and transparent to all levels of society. ATPP is publicly accessible in Neuroimaging Informatics Tools and Resources Clearinghouse8 (NITRC) (https://www.nitrc.org/projects/atpp). Its source codes are hosted in GitHub9 (https://github.com/haililihai/ATPP_CLI; https://github.com/haililihai/ATPP_GUI), under the GNU generic purpose license version 310 (GPLv3), and are welcome to download and fork. The Digital Object Identifiers (DOIs) providing a persistent way to make digital data easily and uniquely citable was created from Zenodo11 platform with those GitHub repositories (ATPP CLI v2.0.0, doi: https://doi.org/10.5281/zenodo.239702; ATPP GUI v2.0.0, doi: https://doi.org/10.5281/zenodo.239705). " | pipeline, integrated pipeline, tractography, brain, parcel, gui, workflow |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Chinese Academy of Sciences; Beijing; China |
National Natural Science Foundation of China10.13039/501100001809 911323013162010390581501179 | Available for download | https://doi.org/10.5281/zenodo.239705, https://doi.org/10.5281/zenodo.239702 | https://github.com/haililihai/ATPP_CLI, https://github.com/haililihai/ATPP_GUI | SCR_014815 | Automatic Tractography-based Parcellation Pipeline (ATPP) | 2026-09-19 12:53:02 | 3 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
