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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Brain Catalogue Resource Report Resource Website |
Brain Catalogue (RRID:SCR_009442) | Brain Catalogue | data or information resource, software resource, source code | High quality data, open and freely available to everyone to celebrate the diversity of the vertebrate brain. Do you have data that you would like to share? Do not hesitate to contact them! The Brain Catalogue is developed by Florencia Grisanti (Taxidermy Workshop of the Natural History Museum in Paris) and Roberto Toro (Neuroscience Department of the Institut Pasteur). Many of our specimens come from the Vertebrate Brain Collection of the Jardin des Plantes, curated by Marc Herbin, and are scanned at the Institut du Cerveau et de la Moelle (ICM) by Mathieu Santin and Alexandra Petiet, from the CENIR laboratory, with financial and methodological support kindly provided by Olivier Colliot, head of the Cogimage team at the ICM. | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Creative Commons Attribution-NonCommercial-ShareAlike License, v3 Unported, Other/Commercial license License | nlx_155586 | SCR_009442 | The Brain Catalogue | 2026-09-19 12:55:59 | 0 | ||||||||
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UNC Human DTI Brain Atlas Resource Report Resource Website |
UNC Human DTI Brain Atlas (RRID:SCR_009516) | UNC Human DTI Brain Atlas | atlas, data or information resource, data set | Human DTI brain atlases have been generated at UNC-Chapel Hill for several age groups, by iterative joint deformable registration of training datasets into a single unbiased DTI average image. Atlases packages include an atlas DTI tensor image, atlas DTI property images (FA, MD, AD, RD), and single tensor tractography based fiber tracts of major tracts with related 3D planes for fiber profile information: genu, splenium, anterior and posterior limb of internal capsule, uncinate fasciculus. | atlas data, magnetic resonance, dti, genu, splenium, anterior limb of internal capsule, posterior limb of internal capsule, uncinate fasciculus |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
Creative Commons Attribution-NonCommercial-ShareAlike License | nlx_155678 | SCR_009516 | 2026-09-19 12:55:59 | 0 | ||||||||
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NICE-SIGN Resource Report Resource Website |
NICE-SIGN (RRID:SCR_009629) | NICE-SIGN | data processing software, software application, software resource | A nice sign of bias field correction (nonuniformity) in medical images. This tool is fast and efficient. Technical details can be found at http://zheng.vision.googlepages.com/biasCorrection_miccai09_Zheng.pdf | magnetic resonance |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Pennsylvania Perelman School of Medicine; Pennsylvania; USA |
nlx_155881 | SCR_009629 | 2026-09-19 12:56:00 | 0 | |||||||||
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g.BSanalyze Resource Report Resource Website 1+ mentions |
g.BSanalyze (RRID:SCR_009625) | g.BSanalyze | data processing software, software application, software resource | An interactive environment for multimodal biosignal data processing and analysis in the fields of clinical research and life sciences. It is the most comprehensive package to analyze non-invasive and invasive brain-, heart- and muscle-functions and dysfunctions. It includes many functions such as support vector machines, event-related ECG, support for P300 and SSVEP/SSSEP BCIs, zero class detection for BCIs, compressed spectral array, minimum energy, and more! g.BSanalyze consists of a base version for data import, visualization, transformation and pre-processing and has several dedicated toolboxes. The package comes with many sample biosignal data-sets, including P300, SSVEP, motor imagery, CSP BCIs, Tilt-Table, EPs, multi-unit activity, CFM, and ERD/ERS. | ascii, eeg, meg, matlab, microsoft, windows, clinical | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Other/Commercial license License | nlx_155850 | http://www.nitrc.org/projects/gbsanalyze | SCR_009625 | 2026-09-19 12:56:00 | 2 | |||||||
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Jim Resource Report Resource Website 100+ mentions |
Jim (RRID:SCR_009589) | Jim | data processing software, image analysis software, software application, software resource | A medical image display package that allows easy viewing and analysis of Magnetic Resonance, x-ray CT and other types of medical image. Jim is an up-to-the-minute design with a familiar user-interface. | reusable library, analyze, computed tomography, dicom, domain independent, gnome, java, kde, linux, macos, microsoft, magnetic resonance, nifti, optical imaging, pet, spect, posix/unix-like, sunos/solaris, vrml, win32 (ms windows) | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Commercial | nlx_155779 | http://www.nitrc.org/projects/jim | SCR_009589 | 2026-09-19 12:55:59 | 166 | |||||||
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HI-SPEED Software Packets Resource Report Resource Website 1+ mentions |
HI-SPEED Software Packets (RRID:SCR_009585) | HI-SPEED Software Packets | data processing software, software application, software resource | HI-SPEED Software Packets contain # unconstrained and constrained nonlinear least squares diffusion tensor estimation techniques, # 2-dimensional and 3-dimensional analytical (Shepp-Logan) magnetic resonance imaging phantoms in both the Fourier and image domains, # techniques for reporting the underlying signal-to-noise ratio in magnetic resonance (MR) images, # Probabilistic Identification and EStimation of NOise (PIESNO)---a technique for identifying noise-only pixels and estimating the underlying noise standard deviation in MR images, and # a signal-transformational technique for breaking the noise floor in MR images. Many more computational tools will be shared with users and developers as they become available. | reusable library, image reconstruction, java, modeling, magnetic resonance, os independent, statistical operation, tensor metric, mri, diffusion tensor mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Wisconsin-Madison; Wisconsin; USA |
HI-SPEED Software Packets License | nlx_155771 | http://www.nitrc.org/projects/hispeed | SCR_009585 | 2026-09-19 12:55:59 | 1 | |||||||
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Age Related Atrophy Dataset Resource Report Resource Website |
Age Related Atrophy Dataset (RRID:SCR_009528) | Age Related Atrophy Dataset | data or information resource, data set, software resource, source code | Dataset of structural MR images of 70 subjects collected during 2008-2010 across a wide range of ages. The dataset also contains resting state fMRI for most subjects. The structural images are T1 weighted, T2 weighted-FLAIR, 25 direction DTI, and the T1 mapping DESPOT [1] sequence. Reconstructed T1 maps for each subject are also available. The aquisition protocol was designed to study structural differences between young and older adults including both shape and intensity changes. Anonymized DICOM image sessions and processed images for each subject are available. The data is licensed under the Creative Commons Attribution License. It may be used freely for commercial, academic, or other use, as long as the original source is properly cited. http://www.bsl.ece.vt.edu/index.php?page=ara-dataset | magnetic resonance, image collection, mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Virginia Polytechnic Institute and State University; Virginia; USA |
Aging | NIH Roadmap for Medical Research ; NCRR U54 RR021813 |
Creative Commons Attribution License | nlx_155692 | http://www.nitrc.org/projects/aradata | SCR_009528 | 2026-09-19 12:55:59 | 0 | |||||
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AMILab Resource Report Resource Website 1+ mentions |
AMILab (RRID:SCR_009525) | AMILab | data processing software, software application, software resource | An opensource software for image analysis, processing and visualization. It provides convenient visualization tools for 2D and 3D images and it is highly extensible through its own scripting language. At visualization level, AMILab includes a 2D/3D image viewer, a 3D polygon viewer based on OpenGL, a 2D Curve viewer to visualize 2D curves, histograms and color/opacity transfer functions, and a GPU-enabled raycasting script for Volume Rendering based on VTK. The software includes an automatic C++ wrapping system which permits fast development of new visualization tools and image processing algorithms. This wrapping system currently wraps about 200 classes from wxwidgets library and about 100 classes from VTK. | active contour, analyze, animation, artifact removal, bshort/bfloat, c++, dicom, domain independent, filtering, format conversion, fourier transform, frequency domain, gnome, image display, intensity contour, kde, linux, macos, medial axis, microsoft, minc, motion analysis, nrrd, posix/unix-like, python, quality metrics, rendering, resampling, segmentation, shape analysis, software, spatial transformation, spline interpolation, surface rendering, temporal transformation, two dimensional display, visualization, volume rendering, win32 (ms windows), windows | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | PMID:22356993 | GNU Lesser General Public License | nlx_155687 | http://www.nitrc.org/projects/amilab | SCR_009525 | 2026-09-19 12:55:59 | 1 | ||||||
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fNIRS Data Analysis Environment Resource Report Resource Website 1+ mentions |
fNIRS Data Analysis Environment (RRID:SCR_009522) | fNIRS Data Analysis Environment | data processing software, image analysis software, software application, software resource | A data analysis environment for diffuse optical tomography (DOT) functional neuroimaging data. Developed to process data from steady-state time-series measurements, it allows for maximal flexibility in the number and positions of optodes. The central component is an application called NAVI. Features include: # An electronic ledger (records metadata for all data transformations). # Data conditioning (e.g., frequency-filtering, selection of data on the basis of signal-to-noise ratio.) # 2D or 3D image formation and display. # Interpretation: atlas-based mapping; automated anatomical labeling; GLM; data-driven methods (e.g., PCA, ICA); model-based (e.g., dynamic causal modeling) and data-driven (e.g., correlation) connectivity analysis. Another important component is the Brain Model Generator, which includes FEM meshes for all parts of the head accessible to DOT measurements. The user can input the numbers of optodes, and manually specify their locations or input tracking-system data. | optical imaging, diffuse optical tomography, functional neuroimaging, optical tomography | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | nlx_155683 | SCR_009522 | 2026-09-19 12:55:59 | 1 | |||||||||
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CURRY Resource Report Resource Website 100+ mentions |
CURRY (RRID:SCR_009546) | CURRY | data processing software, software application, software resource | Processing software for multimodal neuroimaging centered on combining functional data such as EEG and MEG with imaging data from MRI and CT to optimize source reconstruction. They are now combining Curry's strength with the acquisition and signal processing features of the SCAN software for a comprehensive EEG acquisition, data analysis, source localization and source imaging package. | multimodal, atlas, application, connectivity, analysis, computed, tomography, database, eeg, meg, electrocorticography, modeling, finite, element, format, conversion, forward, inverse, image, reconstruction, meg, mesh, generation, model, magnetic resonance, pet, spect, segmentation, simulation, spatial, transformation, volumetric, neuroimaging, FASEB list | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Commercial license | nlx_155726 | http://www.nitrc.org/projects/curry_7 | SCR_009546 | CURRY Scan 7 Neuroimaging Suite, CURRY 8, CURRY 7, CURRY Neuroimaging Suite | 2026-09-19 12:55:59 | 170 | ||||||
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FastICA Resource Report Resource Website 100+ mentions |
FastICA (RRID:SCR_013110) | FastICA | data processing software, image analysis software, software application, software resource | General-purpose unsupervised data-analysis tool, most often used for brain imaging data. | independent component analysis, magnetic resonance, statistical operatio, matlab |
is used by: ICASSO is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Aalto University; Espoo; Finland |
GNU General Public License | nlx_155758 | http://www.nitrc.org/projects/incf_fastica | SCR_013110 | 2026-09-19 12:56:01 | 200 | |||||||
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DTI Atlas Builder Resource Report Resource Website 1+ mentions |
DTI Atlas Builder (RRID:SCR_013112) | DTIAtlasBuilder | data processing software, software application, software resource | This tool creates an Atlas image as an average of several DTI images that will be registered. The registration will be done in two steps : - Affine Registration with BRAINSFit - Non Linear Registration with GreedyAtlas A final step will apply the transformations to the original DTI images so that the final average can be computed. The main function writes a python script that will be executed to compute the Atlas. By running DTIAtlasBuilder, you will need to fill in informations in a Graphical User Interface, and then compute the Atlas. You can also run the tool in command line without using the GUI. Using the GUI, you will be able to save or load a dataset file or a parameter file. The tool needs these other tools to work, so be sure to have these installed on your computer: - ImageMath - ResampleDTIlogEuclidean - CropDTI - dtiprocess - BRAINSFit - GreedyAtlas - dtiaverage - DTI-Reg - unu - MriWatcher If you download the package, be sure to have the glut library installed. | magnetic resonance, dti, atlas | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | BSD License | nlx_155738 | http://www.nitrc.org/projects/dtiatlasbuilder | SCR_013112 | 2026-09-19 12:56:01 | 2 | |||||||
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COST Resource Report Resource Website 1000+ mentions |
COST (RRID:SCR_014098) | COST | data processing software, image analysis software, software application, software resource | A tool that implements a graph-based connectivity assessment method. This method uses a multi-directional graph propagation method applied to sampled orientation distribution function (ODF), which can be computed directly from the original diffusion imaging data. | software tool, connectivity assessment, image analysis software |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
SCR_014098 | Connectivity Orientation Spherical distribution Tool | 2026-09-19 12:56:02 | 4543 | |||||||||
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BROCCOLI Resource Report Resource Website 10+ mentions |
BROCCOLI (RRID:SCR_014093) | data processing software, image analysis software, software application, software resource | A software package written in OpenCL (Open Computing Language) that can be used for parallel analysis of fMRI data on a large variety of hardware configurations. If BROCCOLI is running on a GPU, it can perform non-linear spatial normalization to a 1 mm brain template in 4-6 s and run a second level permutation test with 10,000 permutations. | software package, parallel analysis, fmri, non linear spatial normalization, brain | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Free | https://github.com/wanderine/BROCCOLI/ | SCR_014093 | 2026-09-19 12:56:02 | 22 | |||||||||
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3dsvm Resource Report Resource Website |
3dsvm (RRID:SCR_014083) | data processing software, image analysis software, software application, software resource | 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 | 2026-09-19 12:56:02 | 0 | |||||||||
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BrainCSI Resource Report Resource Website 1+ mentions |
BrainCSI (RRID:SCR_013244) | BrainCSI | data processing software, image analysis software, software application, software resource | A tool for analysis of Magnetic Resonance Spectroscopy (MRS) data by registering it to anatomical images. BrainCSI imports LCModel results to calculate absolute metabolite concentrations using tissue water. Corrections to LCModel metabolite concentrations for partial volume of tissues are accomplished by tissue classification of the anatomical images. | magnetic resonance spectroscopy, c++, console (text based), dicom, macos, microsoft, magnetic resonance, nifti, posix/unix-like, software, win32 (ms windows), windows |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: INCF Software Center |
BSD License | nlx_155711 | http://www.nitrc.org/projects/braincsi | SCR_013244 | 2026-09-19 12:56:02 | 1 | |||||||
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NTU-DSI-122: a DSI template in ICBM-152 space Resource Report Resource Website 1+ mentions |
NTU-DSI-122: a DSI template in ICBM-152 space (RRID:SCR_014155) | data or information resource, image, map, radiographic image | A diffusion spectrum imaging (DSI) template constructed in the standard ICBM-152 space from 122 healthy adults. The template was built through incorporating the macroscopic anatomical information using high-resolution T1-weighted images and the microscopic structural information obtained from DSI datasets, rendering it to achieve a high anatomical matching to the ICBM-152 space. This template can serve as a representative DSI dataset for a healthy adult population. It is released in its original DWI format. | dsi, template, map, image, human brain | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | PMID:26095830 | Public, Available to the research community | SCR_014155 | 2026-09-19 12:56:02 | 1 | |||||||||
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Integrated Software Resource Report Resource Website |
Integrated Software (RRID:SCR_004745) | data or information resource, database | A virtual database currently indexing software and tools from the SciCrunch Registry, Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC), Visiome Platform, Cerebellar Platform, Brain Machine Interface Platform, and Genetic Analysis Software (GAS). | database, tool, software, integrated |
is used by: NIF Data Federation is listed by: Genetic Analysis Software is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Visiome Platform is related to: Cerebellar Platform is related to: Brain Machine Interface Platform has parent organization: Integrated |
Data are licensed by their respective owners, Use and distribution is subject to the Terms of Use by the original resource | nlx_75188 | https://legacy.neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-10 http://neuinfo.org/nif/nifgwt.html?query=nlx_75188, https://www.neuinfo.org/mynif/search.php?q=*&t=indexable&nif=nlx_75188-1, https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-10 | SCR_004745 | NIF Integrated Software, NIF Integrated Software View, NIF Software, Integrated Software View | 2026-09-19 12:56:46 | 0 | |||||||
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NKI-RS Enhanced Sample Resource Report Resource Website 50+ mentions |
NKI-RS Enhanced Sample (RRID:SCR_010461) | Enhanced NKI-RS | data or information resource, data set | Dataset of 1000 characterized community-ascertained participants using state-of-the-art multiband imaging-based resting state fMRI (R-fMRI) and diffusion tensor imaging (DTI), genetics, and a deep phenotyping protocol from a large cross-sectional sample of brain development, maturation and aging (ages 6 - 85 yrs). The Center for Magnetic Resonance Research (CMRR), University of Minnesota, provided the NKI-RS effort with the latest version of the Multiband EPI sequence (Xu et al. 2012) and associated image reconstruction algorithms, enabling the acquisition of state-of-the-art imaging datasets for this large-scale imaging effort. The enhanced NKI-RS expands upon the phenotypic protocol of the original NKI-RS and captures a broad range of behavioral and cognitive phenomenology relevant to psychiatric health and illness. The validity and value of assessments were evaluated by consulting leaders in the field of psychiatric phenotyping. | demographic, multiband imaging, resting state fmri, diffusion tensor imaging, breath hold scan, eye movement calibration scan, visual stimulation scan, brain development, maturation, young human, late adult human, child, adolescent, adult human, image collection, pediatric, geriatric, behavior, cognitive, phentoyping, neuroimaging, dicom, nifti, multiband echo planar imaging, multiband resting state fmri, multiband diffusion tensor imaging, lifespan, physiological assessment, psychological assessment, genetic |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: NKI/Rockland Sample is related to: NKI-RS Multiband Imaging Test-Retest Pilot Dataset is related to: Mind Research Network - COINS is related to: NIMH Repository and Genomics Resources has parent organization: Nathan S. Kline Institute for Psychiatric Research; New York; USA |
Aging | New York State Office of Mental Health and Research Foundation for Mental Hygiene ; Child Mind Institute 1FDN2012-1; NIMH R01MH094639-01; NIMH R01MH081218; NIMH R01MH083246; NIMH R21MH084126 |
Public, Data Usage Agreement | nlx_157649 | SCR_010461 | Enhanced Nathan Kline Institute - Rockland Sample | 2026-09-19 12:58:56 | 97 | |||||
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MRI Dataset for Hippocampus Segmentation Resource Report Resource Website |
MRI Dataset for Hippocampus Segmentation (RRID:SCR_009597) | Hippocampus Segmentation Dataset | data or information resource, data set | This dataset contains T1-weighted MR images of 50 subjects, 40 of whom are patients with temporal lobe epilepsy and 10 are nonepileptic subjects. Hippocampus labels are provided for 25 subjects for training. The users may submit their segmentation outcomes for the remaining 25 testing images to get a table of segmentation metrics. | hfh hippocampus segmentation, magnetic resonance, hippocampus, image collection, mri, segmentation | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Epilepsy, Normal | PMID:21286946 | Other/Commercial license License | nlx_155797 | http://www.nitrc.org/projects/hippseg_2011 | SCR_009597 | 2026-09-19 12:58:42 | 0 |
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