Searching the RRID Resource Information Network
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 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Group ICA Of EEG Toolbox Resource Report Resource Website 1+ mentions |
Group ICA Of EEG Toolbox (RRID:SCR_002478) | EEGIFT | software application, data processing software, data analysis software, software resource, software toolkit | Implements multiple algorithms for independent component analysis and blind source separation of group (and single subject) EEG data. This MATLAB toolbox is compatible with MATLAB 6.5 and higher. | matlab, eeg, independent component analysis, magnetic resonance, algorithm |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Group ICA of fMRI Toolbox has parent organization: MIALAB - Medical Image Analysis Lab |
NIH ; NIBIB 1R01EB000840 |
PMID:21747835 | Available for download | nlx_155861 | http://www.nitrc.org/projects/gift | SCR_002478 | Group ICA Of EEG Toolbox (EEGIFT) | 2026-02-17 09:59:57 | 5 | ||||
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OpenElectrophy Resource Report Resource Website 10+ mentions |
OpenElectrophy (RRID:SCR_000819) | OpenElectrophy | data analysis software, software application, data processing software, software resource | Software Python module for electrophysiology data analysis. | neurophysiology, electrophysiology, python, intracellular, extracellular, data sharing, analysis sharing, neural signal, spike, oscillation, mysql, eeg, meg, electrocorticography |
uses: Neo is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian has parent organization: NeuralEnsemble |
NIBIB 5R24EB029173 | PMID:19521545 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151873 | http://www.nitrc.org/projects/openelectrophy https://sources.debian.org/src/openelectrophy/ |
SCR_000819 | 2026-02-17 09:59:32 | 10 | |||||
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Insight Segmentation and Registration Toolkit Resource Report Resource Website 50+ mentions |
Insight Segmentation and Registration Toolkit (RRID:SCR_001149) | ITK | data or information resource, topical portal, portal, software resource | Open source, cross platform library that provides developers with extensive suite of software tools for image analysis. Developed through extreme programming methodologies, ITK builds on proven, spatially oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions. | registration, segmentation, multidimension, image processing, reusable library, analyze, bshort/bfloat, c++, console (text based), dicom, java, minc2, nifti, nrrd, os independent, philips par/rec, python, tcl/tk |
uses: Laplace Beltrami Filter on QuadEdge Meshes uses: VTK is used by: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI is used by: Displacement Field Viewer is used by: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Vaa3D is related to: elastix is related to: VMTK in 3D Slicer is related to: NA-MIC Kit is related to: SimpleITK |
NIBIB EB006733; NIBIB EB008374; NIBIB EB009634; NCRR P41RR013218 |
Free, Available for download, Freely available | nif-0000-00319 | http://www.nitrc.org/projects/insighttoolkit | SCR_001149 | Insight Toolkit, National Library of Medicine Insight Segmentation and Registration Toolkit (ITK), Insight Segmentation and Registration Toolkit | 2026-02-17 09:59:36 | 83 | |||||
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Diffusion Tensor Imaging ToolKit Resource Report Resource Website 10+ mentions |
Diffusion Tensor Imaging ToolKit (RRID:SCR_001642) | DTI-TK | software application, data processing software, software resource, software toolkit, image analysis software | 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 | 2026-02-17 09:59:40 | 22 | ||||||
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eMouseAtlas Resource Report Resource Website 50+ mentions |
eMouseAtlas (RRID:SCR_002981) | EMAP, EMA, EMAGE, MAP, EMAP, MAP2.0, | data or information resource, database, atlas | Detailed multidimensional digital multimodal atlas of C57BL/6J mouse nervous system with data and informatics pipeline that can automatically register, annotate, and visualize large scale neuroanatomical and connectivity data produced in histology, neuronal tract tracing, MR imaging, and genetic labeling. MAP2.0 interoperates with commonly used publicly available databases to bring together brain architecture, gene expression, and imaging information into single, simple interface.Resource to visualise mouse development, identify anatomical structures, determine developmental stage, and investigate gene expression in mouse embryo. eMouseAtlas portal page allows access to EMA Anatomy Atlas of Mouse Development and EMAGE database of gene expression.EMAGE is freely available, curated database of gene expression patterns generated by in situ techniques in developing mouse embryo. EMA, e-Mouse Atlas, is 3-D anatomical atlas of mouse embryo development including histology and includes EMAP ontology of anatomical structure, provides information about shape, gross anatomy and detailed histological structure of mouse, and framework into which information about gene function can be mapped. | Mouse Atlas Project, molecular neuroanatomy resource, adult mouse, mouse, brain, c57bl/6j, magnetic resonance microscopy, diffusion-weighted image, blockface imaging, immunohistochemistry, in situ hybridization, neuroanatomy, mri, dti, brain architecture, gene expression, neuroimaging, ontology, connectivity, histology, neuronal tract tracing, genetic labeling, newborn mouse, experimental protocol, bio.tools, ontology, histology, mouse embryo, gene expression, gxd query interface, digital anatomical atlas, spatial region, domain, 2d, 3d, virtual embryo model, development atlas, standard anatomical nomenclature, developmental staging criteria, spatially mapped, anatomy nomenclature, molecular neuroanatomy resource, embryonic mouse, FASEB list |
is related to: GUDMAP Ontology is related to: EMAGE Gene Expression Database is related to: EMAGE Gene Expression Database is related to: HUDSEN is related to: Mouse Genome Informatics: The Mouse Gene Expression Information Resource Project has parent organization: University of Edinburgh; Scotland; United Kingdom has parent organization: Jackson Laboratory is parent organization of: Minimal Anatomical Terminology |
Medical Research Council ; NINDS ; NIBIB ; NIDA ; NIDCD ; NIA |
PMID:15043218 PMID:18077470 PMID:16381949 |
Free, Freely available | nif-0000-00038, nif-0000-00505, biotools:emap, biotools:ma, SCR_007281 | http://www.emouseatlas.org/emap/home.html https://bio.tools/emap https://bio.tools/ma |
http://genex.hgu.mrc.ac.uk/, http://www.loni.ucla.edu/MAP/ | SCR_002981 | emouseatlas, e-mouse Atlas, EMAGE Gene Expression Database, EMA, Edinburgh Mouse Atlas of Gene Expression, e-Mouse Atlas, EMA Anatomy Atlas of Mouse Development | 2026-02-16 09:45:56 | 69 | |||
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Wavelet Analysis of Image Registration Resource Report Resource Website 1+ mentions |
Wavelet Analysis of Image Registration (RRID:SCR_000172) | WAIR | image analysis software, data processing software, software application, software resource | A software tool for the quantitative analysis of various n-dimensional (n-D) image registration techniques. The series of 'C' subroutines which comprise the WAIR library can be easily incorporated into the user's site specific programs and adapted to their particular needs. Wavelet-space triangle analysis is applicable for studying a family of warps on single or multiple n-D data sets. For each data set the WAIR routine assigns a positive real number to every warp alignment in the family, and the best warp for the given data will be the one with the smallest value. It uses the original data prior to warping and the target of the warp in determining warp ranking in reduced wavelet space. Cluster group classification (CGC) is applicable for analyzing the overall performance of a family of warps of a group of data sets. A single number is assigned to each registration alignment, based on its group-clustering characteristics. Spread group classification (SGC) gives preference to registration techniques that spread apart baseline versus activation functional signal for group data. | image analysis, cluster group classification, spread group classification, Java, warp, wavelet space triangle analysis |
is related to: Laboratory of Neuro Imaging has parent organization: University of Southern California; Los Angeles; USA |
NIBIB 9P41EB015922-15 | Free, Available for download, Freely available | nif-0000-00357 | http://www.loni.usc.edu/Software/WAIR | SCR_000172 | 2026-02-16 09:45:12 | 1 | ||||||
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Biomedical Simulations Resource Resource Report Resource Website 1+ mentions |
Biomedical Simulations Resource (RRID:SCR_001952) | BMSR | biomedical technology resource center, training resource | Biomedical technology resource center dedicated to the advancement of the state-of-the-art in biomedical modeling and simulation through Core and Collaborative Research projects, as well as the dissemination of this knowledge and related software through Service, Training and Dissemination activities aimed at the biomedical community at large. The BMSR includes four core research projects: * Pharmacokinetic/Pharmacodynamic Systems Analysis * Nonlinear Modeling of Complex Biomedical Systems * Modeling of Autonomic, Metabolic and Vascular Control Interactions * Nonlinear Modeling of the Hippocampus Fifteen Collaborative Research Projects serve as challenging test grounds for the Resource's methodologies and expertise. | hippocampus, modeling, simulation, model, pharmacokinetic, pharmacodynamic, systems analysis, nonlinear modeling, complex biomedical system, autonomic, metabolic, vascular control, interaction, intracellular signalling, biomarker |
has parent organization: University of Southern California; Los Angeles; USA is parent organization of: BMSR Workshops is parent organization of: BMSR Short Courses is parent organization of: LYSIS is parent organization of: PNEUMA is parent organization of: TARGETgene is parent organization of: EONS is parent organization of: ADAPT |
Cancer, Alzheimer's disease, Metabolic syndrome | NIBIB P41-EB001978 | nif-0000-10530 | http://bmsr.usc.edu/index.html | SCR_001952 | Biomedical Simulations Resource (BMSR) | 2026-02-16 09:45:37 | 8 | |||||
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DICOMConvert Resource Report Resource Website |
DICOMConvert (RRID:SCR_014100) | software application, software resource, standalone software | A DICOM image converter based on the ITK IO mechanism for reading and writing images. The formats currently supported by the converter are DICOM to: Analyze (*.hdr); MetaImage (*.mhd); Nrrd (*.nhdr, *.nrrd). | standalone software, dicom, image converter |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National Institutes of Health |
Center for Infectious Disease Imaging ; NIAID ; NIBIB |
Available for download | SCR_014100 | Dicom Converter | 2026-02-16 09:48:32 | 0 | ||||||||
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MOCA Resource Report Resource Website 1+ mentions |
MOCA (RRID:SCR_015524) | software resource, software toolkit | Collection of software tools for the computational analysis of brain anatomy with MRI data. It includes automated software tools from surface reconstruction to their mapping via metric optimization in the Laplace-Beltrami embedding space. It is general and can be applied to a wide range of anatomical structures including cortical, sub-cortical, and fiber bundle surfaces. | computational analysis, brain anatomy, mri data, laplace-beltrami embedding space, metric optimization | has parent organization: University of Southern California; Los Angeles; USA | NIBIB K01EB013633; NIBIB P41EB015922 |
Available for download, Runs on Windows, Runs on Linux, Free | SCR_015524 | Metric Optimization for Computational Anatomy (MOCA), Metric Optimization for Computational Anatomy | 2026-02-16 09:48:49 | 1 | ||||||||
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3D MRI Atlas of Mouse Development Resource Report Resource Website 1+ mentions |
3D MRI Atlas of Mouse Development (RRID:SCR_008090) | MRI Atlas of Mouse Development, | data or information resource, atlas |
THIS RESOURCE IS NO LONGER IN SERVICE, documented May 10, 2017. A pilot effort that has developed a centralized, web-based biospecimen locator that presents biospecimens collected and stored at participating Arizona hospitals and biospecimen banks, which are available for acquisition and use by researchers. Researchers may use this site to browse, search and request biospecimens to use in qualified studies. The development of the ABL was guided by the Arizona Biospecimen Consortium (ABC), a consortium of hospitals and medical centers in the Phoenix area, and is now being piloted by this Consortium under the direction of ABRC. You may browse by type (cells, fluid, molecular, tissue) or disease. Common data elements decided by the ABC Standards Committee, based on data elements on the National Cancer Institute''s (NCI''s) Common Biorepository Model (CBM), are displayed. These describe the minimum set of data elements that the NCI determined were most important for a researcher to see about a biospecimen. The ABL currently does not display information on whether or not clinical data is available to accompany the biospecimens. However, a requester has the ability to solicit clinical data in the request. Once a request is approved, the biospecimen provider will contact the requester to discuss the request (and the requester''s questions) before finalizing the invoice and shipment. The ABL is available to the public to browse. In order to request biospecimens from the ABL, the researcher will be required to submit the requested required information. Upon submission of the information, shipment of the requested biospecimen(s) will be dependent on the scientific and institutional review approval. Account required. Registration is open to everyone.. Documented on October, 01, 2019. 3D digital atlas of normal mouse development constructed from magnetic resonance image data. The download is a zipped file containing the six atlases Theiler Stages (ts) 13, 21,23, 24, 25 and 26 and MRI data for an unlabeled ts19 embryo. To view the atlases, download and install MBAT from: http://mbat.loni.ucla.edu Specimens were prepared in aqueous, isotonic solutions to avoid tissue shrinkage. Limited specimen handling minimized physical perturbation of the embryos to ensure accurate geometric representations of developing mouse anatomy. Currently, the atlas contains orthogonal sections through MRI volumes, three stages of embryos that have annotated anatomy, photographs of several stages of development, lineage trees for annotated embryos and a gallery of images and movies derived from the annotations. Anatomical annotations can be viewed by selecting a transverse section and selecting a pixel on the displayed slice. |
embryo, embryogenesis, development, magnetic resonance imaging, mouse, developing, c57bl/6, development, anatomy, embryonic mouse | is related to: Mouse BIRN Atlasing Toolkit | Normal | Human Brain Project ; Biomedical Informatics Research Network ; Beckman Institute at Caltech ; NCRR ; NIBIB |
PMID:10091864 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10989 | SCR_008090 | Caltech micro MRI Atlas of Mouse Development, microMRI Atlas of Mouse Development, Caltech MRI Atlas of Mouse Development, micro MRI Atlas of Mouse Development | 2026-02-16 09:47:06 | 1 | ||||
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Functional Regression Analysis of DTI Tract Statistics Resource Report Resource Website |
Functional Regression Analysis of DTI Tract Statistics (RRID:SCR_002293) | FRATS | image analysis software, software application, data processing software, software resource | Software for the analysis of multiple diffusion properties along fiber bundle as functions in an infinite dimensional space and their association with a set of covariates of interest, such as age, diagnostic status and gender, in real applications. The resulting analysis pipeline can be used for understanding normal brain development, the neural bases of neuropsychiatric disorders, and the joint effects of environmental and genetic factors on white matter fiber bundles. | computational neuroscience, imaging genomics, magnetic resonance, regression analysis, dti, statistics |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
NSF BCS-08-26844; NCRR UL1-RR025747-01; NIMH MH086633; NIA AG033387; NIMH MH064065; NICHD HD053000; NIMH MH070890; NINDS R01NS055754; NIBIB U54 EB005149-01 |
PMID:20335089 | Academic Free License | nlx_155629 | SCR_002293 | Functional Regression Analysis of DTI | 2026-02-17 09:59:45 | 0 | |||||
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DTI-TEMPLATE-RHESUS-MACAQUES Resource Report Resource Website 1+ mentions |
DTI-TEMPLATE-RHESUS-MACAQUES (RRID:SCR_002482) | DTI-TEMPLATE-RHESUS-MACAQUES | data or information resource, reference atlas, atlas | A population-specific DTI template for young adolescent Rhesus Macaque (Macaca mulatta) monkeys using 271 high-quality scans. Using such a large number of animals in generating a template allows it to account for variability in the species. Their DTI template is based on the largest number of animals ever used in generating a computational brain template. It is anticipated that their DTI template will help facilitate voxel-based and tract specific WM analyses in non-human primate species, which in turn may increase our understanding of brain function, development, and evolution. | magnetic resonance, dti, young, adolescent, brain |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Wisconsin-Madison; Wisconsin; USA |
NIMH MH62015; NIMH MH084051; NIMH MH080826; NIMH MH46729; NIMH MH81884; NIMH MH018931; NIBIB R03-EB009321 |
PMID:21803162 | Free, Available for download, Freely available | nlx_155872 | SCR_002482 | 2026-02-17 09:59:57 | 3 | ||||||
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LYSIS Resource Report Resource Website 50+ mentions |
LYSIS (RRID:SCR_001385) | LYSIS | software application, data processing software, data analysis software, source code, software resource, software toolkit, simulation software | Interactive software of a set of modular programs (each performing a specific task) that provide an integrated computing environment for data analysis and system modeling. Unique capabilities of LYSIS include input-output nonlinear system modeling and the novel methodology of Principal Dynamic Modes (PDMs). LYSIS is currently available in two versions: one for LYSIS 7.1 Windows and one for LYSIS 7.2 Matlab. Early versions are also available for UNIX environments, distributed as source code that can be compiled for each UNIX implementation (e.g., Solaris, HPUX, Linux). Specific features of LYSIS that cannot be found in commercially available packages include the efficient kernel estimation using Laguerre expansions and the use of Principal Dynamic Modes (PDMs). These enable input-output modeling of dynamic nonlinear systems with relatively short data-records (even in the presence of considerable noise). System Requirements * Operating System ** Windows XP/Vista/7 ** Sun/Unix: Solaris 2.x | modeling, data analysis, system modeling, analysis, nonlinear, principal dynamic modes, nonlinear modeling, windows, matlab | has parent organization: Biomedical Simulations Resource | NIBIB P41-EB001978; NCRR P41-RR01861 |
Free, Freely Available | nlx_152571 | SCR_001385 | 2026-02-17 09:59:38 | 55 | |||||||
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LONI ShapeTools Resource Report Resource Website 1+ mentions |
LONI ShapeTools (RRID:SCR_002697) | ShapeTools | software development tool, software application, software resource, software toolkit, software library | Software library that is a collection of Java classes that enable Java programmers to model, manipulate and visualize geometric shapes and associated data values. It simplifies the creation of application programs by providing a ready-made set of support routines. * File format readers that implement ShapeIO interface (modeled after Java ImageIO) are automatically used when appropriate. * Storage of additional metadata of arbitrary type (other than shape vertices and interconnections) is enabled by the use of data attributes. * Shapes may contain a set of child shapes allowing for the construction and manipulation of complex hierarchies of shapes. * The various components of a shape are specified as interfaces with specific implementations, making it easy to create specialized implementations of a shape component when different performance characteristics are required. | data visualization, java, shape analysis software, computed tomography, magnetic resonance, pet, spect |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps is related to: LONI ShapeViewer has parent organization: Laboratory of Neuro Imaging |
NIBIB 9P41EB015922-15; NCRR 2-P41-RR-013642-15; NCRR U54 RR021813 |
Free, Freely available | nif-0000-23323 | SCR_002697 | 2026-02-17 10:00:02 | 1 | |||||||
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brainlife Resource Report Resource Website 10+ mentions |
brainlife (RRID:SCR_020940) | storage service resource, data or information resource, project portal, service resource, portal, data repository | Free cloud platform for secure neuroscience data analysis. Allows to manage data, processing and results, sharing projects privately with collaborators or publicly with brainlife.io community.Promotes engagement and education in reproducible neuroscience.You can share your neuroimaging data publicly or privately. Data on brainlife.io is organized as Datatypes to allow interoperability between Apps. | Secure neuroscience data analysis, manage data, sharing projects, data files mapping, interoperate | works with: brainlife.io | NSF OAC 1916518; NSF IIS 1912270; NSF IIS 1636893; NSF BCS 1734853; NIBIB R01 EB029272; Google Cloud ; Microsoft Research Award ; Microsoft Investigator Fellowship ; Indiana University |
Free, Freely available | r3d100012397, r3d100013223 | https://github.com/brainlife https://github.com/brainlife/brainlife https://doi.org/10.17616/R3KV0P https://doi.org/10.17616/R31NJMP3 |
SCR_020940 | Brainlife | 2026-02-17 10:03:41 | 15 | ||||||
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CRISPResso Resource Report Resource Website 10+ mentions |
CRISPResso (RRID:SCR_021538) | software application, data processing software, data analysis software, sequence analysis software, software resource, software toolkit | Software suite of tools to qualitatively and quantitatively evaluate outcomes of genome editing experiments in which target loci are subject to deep sequencing and provides integrated, user friendly interface. Used for analysis of CRISPR-Cas9 genome editing outcomes from sequencing data. CRISPResso2 provides accurate and rapid genome editing sequence analysis.Used for analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments. | Quantification, visualization, CRISPR-Cas9 outcomes, coding sequences evaluation, noncoding elements evaluation, selected off target sites evaluation, genome editing evaluation. | NHGRI RM1 HG009490; NIBIB R01 EB022376; NIGMS R35 GM118062; NIGMS R35 GM118158; NIDDK R03 DK109232; NHLBI P01 HL32262; NHGRI R00 HG008399; NIDDK P30 DK049216; NHLBI R01 HL119099; NHGRI R01 HG005085 |
PMID:27404874 PMID:30809026 |
Free, Available for download, Freely available | https://github.com/pinellolab/CRISPResso2 https://github.com/pinellolab/CRISPResso |
SCR_021538 | CRISPResso2 | 2026-02-17 10:04:06 | 21 | |||||||
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Berkeley Advanced Reconstruction Toolbox Resource Report Resource Website 1+ mentions |
Berkeley Advanced Reconstruction Toolbox (RRID:SCR_016168) | BART | software application, data processing software, software resource, image analysis software, image reconstruction software | Image reconstruction software for MRI. Its library provides common operations on multi-dimensional arrays, Fourier and wavelet transforms, as well as generic implementations of iterative optimization algorithms. | mri, reconstruction, magnetic, resonance, neuroimaging, array, transform, algorithm | is listed by: Debian | NCRR R41 RR09784; American Heart Association 12BGIA9660006; NIBIB R01 EB009690; UC Discovery 193037; Sloan Research Fellowship ; GE Healthcare |
Open source, Free | https://mrirecon.github.io/bart/ https://sources.debian.org/src/bart/ |
SCR_016168 | 2026-02-17 10:03:19 | 7 | |||||||
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GIMME Resource Report Resource Website 1+ mentions |
GIMME (RRID:SCR_014115) | GIMME | software application, data processing software, data analysis software, software resource, software toolkit | Software Matlab toolbox for directed functional connectivity analysis of fMRI BOLD signal from predefined regions of interest. It recovers true structure of connections and estimates weights attributed to each connection. Obtains patterns at group and individual levels. | Functional, connectivity, analysis, fMRI, BOLD, signal, predefined, region, pattern, BRAIN Initiative |
uses: MATLAB is recommended by: BRAIN Initiative is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Pennsylvania; Philadelphia; USA has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
NIBIB EB022904; NIBIB R21 EB015573; NSF 0852147 |
PMID:22732562 | Free, Available for download, Freely available | SCR_014115 | Group Iterative Multiple Model Estimation | 2026-02-17 10:02:32 | 2 | ||||||
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Minian Resource Report Resource Website 1+ mentions |
Minian (RRID:SCR_022601) | software application, data processing software, data analysis software, software resource, software toolkit | Software miniscope analysis pipeline that requires low memory and computational demand so it can be run without specialized hardware. Offers interactive visualization that allows users to see how parameters in each step of pipeline affect output. | Miniscope, analysis pipeline, calcium imaging, mouse, Visualization, OpenBehavior |
is listed by: OpenBehavior has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
NIMH DP2MH122399; NIMH R01MH120162; NIBIB R01EB028166; NSF 1926800; NSF 2046583; NINDS U01NS094286; NSF 1700408; NIA F32AG067640; NINDS R03 NS111493; NIDA R21 DA049568; NINDS R01 NS116357 |
PMID:35642786 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/minian/ | SCR_022601 | 2026-02-17 10:04:22 | 4 | |||||||
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ReproNim: A Center for Reproducible Neuroimaging Computation Resource Report Resource Website 10+ mentions |
ReproNim: A Center for Reproducible Neuroimaging Computation (RRID:SCR_016001) | ReproNim | data or information resource, portal, organization portal | Center to help neuroimaging researchers to find and share data in FAIR fashion, to describe their data and analysis workflows in replicable fashion, to manage their computational resource options so that outcomes of neuroimaging research are more reproducible. | Neuroimaging, share, data, FAIR, analysis, manage, reproducible |
is related to: ABCD-ReproNim Course is related to: SVNTest is parent organization of: ReproIn: The ReproNim image input management system (featuring DataLad) |
NIBIB P41 EB019936 | Restricted | SCR_016005 | http://repronim.org | SCR_016001 | 2026-02-17 10:03:15 | 12 |
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