FSL
Resource Report
Resource Website
5000+ mentions
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FSL (RRID:SCR_002823)
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software library, software toolkit, software resource
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Software library of image analysis and statistical tools for fMRI, MRI and DTI brain imaging data. Include registration, atlases, diffusion MRI tools for parameter reconstruction and probabilistic taractography, and viewer. Several brain atlases, integrated into FSLView and Featquery, allow viewing of structural and cytoarchitectonic standard space labels and probability maps for cortical and subcortical structures and white matter tracts. Includes Harvard-Oxford cortical and subcortical structural atlases, Julich histological atlas, JHU DTI-based white-matter atlases, Oxford thalamic connectivity atlas, Talairach atlas, MNI structural atlas, and Cerebellum atlas.
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dti, brain, imaging, data, structural, mri, diffusion, function, preprocessing, analysis, statistical, tractography, atlas, neuroimaging, parameter, reconstruction, volumetric, segmentation, independent, component, temporal, transformation
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uses: Neuroimaging Data Model
is used by: Spinal Cord Toolbox
is used by: Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND)
is used by: XFSL: An FSL toolbox
is used by: CMIND PY
lists: SUSAN
lists: FUGUE
lists: Miscvis
lists: BayCEST
lists: ICA-PNM
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is listed by: Debian
is listed by: SoftCite
is related to: Rodent Brain Extraction Tool
is related to: Human Connectome Coordination Facility
is related to: BASH4RfMRI
is related to: DW-MRI registration in FSL
is related to: FSL extensions
is related to: Diffusion MRI of Traumatic Brain Injury
is related to: Segmentation of Hippocampus Subfields
is related to: masked ICA (mICA) Toolbox
has parent organization: University of Oxford; Oxford; United Kingdom
has plug in: Multivariate Exploratory Linear Optimized Decomposition into Independent Components
has plug in: FMRI Expert Analysis Tool
has plug in: FABBER
has plug in: BASIL
has plug in: VERBENA
has plug in: Brain Extraction Tool
has plug in: FMRIB's Automated Segmentation Tool
has plug in: FMRIB’s Integrated Registration and Segmentation Tool
has plug in: Harvard - Oxford Cortical Structural Atlas
has plug in: FMRIB's Linear Image Registration Tool
has plug in: FNIRT
has plug in: FSLVBM
has plug in: SIENA
has plug in: SIENAX
has plug in: Multimodal Image Segmentation Tool
has plug in: Brain Intensity AbNormality Classification Algorithm
has plug in: Multimodal Surface Matching
has plug in: fsl_anat
has plug in: FMRIB's Diffusion Toolbox
has plug in: Tract Based Spatial Statistics
has plug in: XTRACT
has plug in: eddy
has plug in: topup
has plug in: eddyqc
has plug in: randomise
has plug in: PALM
has plug in: fsl-cluster
has plug in: FDR
has plug in: DualRegression
has plug in: FLOBS
has plug in: FSLeyes
has plug in: Fslutils
has plug in: Atlasquery
has plug in: MCFLIRT
has plug in: POSSUM
has plug in: FSL-MRS
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EPSRC ;
MRC ;
BBSRC ;
GlaxoSmithKline ;
Pfizer |
PMID:21979382
PMID:19059349
PMID:15501092 |
Free, Available for download, Freely available |
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nif-0000-00305, birnlex_2067, SCR_007368 |
http://www.nitrc.org/projects/fsl, http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/, https://sources.debian.org/src/fsl/ |
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SCR_002823 |
, FMRIB Software Library, fMRIB Software Library, Functional Magnetic Resonance Imaging of the Brain Software Library |
2026-08-10 09:31:50 |
5015 |
University of Oxford; Oxford; United Kingdom
Resource Report
Resource Website
10+ mentions
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University of Oxford; Oxford; United Kingdom (RRID:SCR_006361)
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Oxford
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university
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Collegiate research university in Oxford, England. Teaching as early as 1096, making it the oldest university in English speaking world and world second oldest university in continuous operation.
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uses: ShareLaTeX
uses: Overleaf
uses: ReadCube
uses: Sparrho
uses: Writefull
uses: LabArchives
uses: Bioz
is related to: Medical Research Council Harwell: An International Centre for Mouse Genetics
is related to: European Gram Negative AntiBacterial Engine
is related to: Kinetics for Drug Discovery
is related to: Kidney Health Initiative
is related to: READNA
is related to: ONE Study
is related to: European Management Platform for Emerging and Re-Emerging Infectious Disease Entities (EMPERIE)
is related to: ShareLaTeX
is related to: LabArchives
is related to: Center for Expanded Data Annotation and Retrieval
is parent organization of: University of Oxford Labs and Facilities
is parent organization of: WTCHG Genome Scan Viewer
is parent organization of: NeuroHub: the information environment for Neuroscientists
is parent organization of: bioDBcore
is parent organization of: FSL
is parent organization of: Wellcome Trust Centre for Human Genetics
is parent organization of: Structural Genomics Consortium
is parent organization of: FAIRsharing
is parent organization of: PeaKDEck
is parent organization of: CiTO - the Citation Typing Ontology
is parent organization of: Brain Bank for Autism
is parent organization of: Oxford Science Blog
is parent organization of: Oxford Centre for Functional MRI of the Brain
is parent organization of: JISC Open Citations
is parent organization of: Open Provenance Model Vocabulary
is parent organization of: Computational Genomics Analysis Tools
is parent organization of: Alpha-7 Database
is parent organization of: FMRIB Software Library
is parent organization of: PairsDB
is parent organization of: RNA Virus Database
is parent organization of: Cellular Open Resource
is parent organization of: DTU
is parent organization of: Bioinformatics and Statistical Genetics
is parent organization of: elk-reasoner
is parent organization of: CGDB
is parent organization of: Potassium Channel Database
is parent organization of: Oxford Central Proteomics Facility
is parent organization of: Colwiz
is parent organization of: myExperiment
is parent organization of: ISA Infrastructure for Managing Experimental Metadata
is parent organization of: EMIF
is parent organization of: CPFP
is parent organization of: IonChannelGenealogy
is parent organization of: Orthologous and Paralogous Transcripts in Clades
is parent organization of: HomeoDB
is parent organization of: Open Trials
is parent organization of: OVAL
is parent organization of: easyGV
is parent organization of: iHOMA2
is parent organization of: microC
is parent organization of: University of Oxford Computational Biology Research Group Core Facility
is parent organization of: University of Oxford Medical Sciences Division Computational Genomics: Analysis and Training Core Facility
is parent organization of: ARGON
is parent organization of: FAIRassist.org
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Crossref funder ID:501100000769, Wikidata:Q34433, ISNI:0000 0004 1936 8948, grid.4991.5, nlx_59631 |
https://ror.org/052gg0110 |
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SCR_006361 |
Oxford University |
2026-08-08 11:58:43 |
11 |
Human Connectome Coordination Facility
Resource Report
Resource Website
1000+ mentions
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Human Connectome Coordination Facility (RRID:SCR_008749)
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WU-Minn HCP
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image repository, service resource, storage service resource, data repository
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Consortium to comprehensively map long-distance brain connections and their variability. It is acquiring data and developing analysis pipelines for several modalities of neuroimaging data plus behavioral and genetic data from healthy adults.
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brain, connectivity, adult human, mri, resting-state fmri, functional mri assay, neuroimaging, surface rendering, time domain analysis, tractography, xnat pipeline
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
is related to: Brain Connectivity Toolbox
is related to: FieldTrip
is related to: BALSA
has parent organization: Washington University in St. Louis; Missouri; USA
has parent organization: NIH Human Connectome Project
has parent organization: University of Minnesota Twin Cities; Minnesota; USA
is parent organization of: WU-Minn HCP 500 Subjects MR and MEG Release
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healthy, twin |
NIMH MH091657;
NIH Blueprint for Neuroscience Research |
PMID:23684880
PMID:23702419
PMID:23668970
PMID:23702415
PMID:23702418
PMID:23707591
PMID:23702417
PMID:23684877 |
Free, Freely available |
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nlx_143922 |
http://www.nitrc.org/projects/hcp_wuminn, http://www.humanconnectome.org/documentation/S500/ |
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SCR_008749 |
HCP WU-Minn Consortium, WU-Minn: Human Connectome Project, HUMAN CONNECTOME PROJECT WU-Minn Consortium, WU-Minn Consortium: Human Connectome Project, WU-Minn Consortium: HCP |
2026-08-10 09:33:33 |
1095 |
Diffusion MRI of Traumatic Brain Injury
Resource Report
Resource Website
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Diffusion MRI of Traumatic Brain Injury (RRID:SCR_001637)
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Diffusion MRI of TBI
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data or information resource, topical portal, portal
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Project to define a roadmap for diffusion MR imaging of traumatic brain imaging and design an infrastructure to implement the recommendations and tested to ensure feasibility, disseminate results, and facilitate deployment and adoption. The research roadmap and infrastructure development will concentrate on three areas: 1) standardization of diffusion imaging methodology, 2) trial design and patient selection for acute or chronic therapy, and 3) development of multi-center collaborations and repositories for evaluating whether advanced diffusion imaging does improve decision making and TBI patients' outcomes. # DTI MRI reproducability: One of the major areas of investigation in this project is to study the reproducibility of data acquisition and image analysis algorithms. Understanding reproducibility defines a base level of deviation from which scans can be analyzed with statistical significance. As part of this work they are also developing site qualification criteria with the intention of setting limits on the MR system minimal performance for acceptable use in TBI evaluation. # Infrastructure for image storage, analysis and visualization: There is a continuing need to refine and extend software methods for diffusion MRI data analysis and visualization. Not only to translate tools into clinical practice, but also to encourage continuation of the innovation and development of new tools and techniques. To deliver upon these goals they are designing and implementing a storage and computational infrastructure to provide access to shared datasets and intuitive interfaces for analysis and visualization through a variety of tools. A strong emphasis has been placed on providing secure data sharing and the ability to add community defined common data elements. The infrastructure is built upon a Software-as-a-Service model, in which tools are hosted and managed remotely allowing users access through well-defined interfaces. The final service will also facilitate composition or orchestration of workflows composed of different analysis and processing tasks (for example using LONI or XNAT pipelines) with the ultimate goal of providing automated no-click evaluations of diffusion MRI data. # Tool development: The final aspect of this project aims to facilitate and encourage tool development and contribution. By providing access to open datasets, they will create a platform on which tool developers can compare and improve and their tools. When tools are sufficiently mature they can be exposed in the infrastructure mentioned above and used by researchers and other developers.
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diffusion tensor imaging, diffusion mri, standard specification, image repository, analysis, visualization, data sharing, common data element, service resource, data set
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is related to: vIST/e
is related to: Camino
is related to: DTI and Fibertools Software Package
is related to: Diffusion Tensor Imaging ToolKit
is related to: ExploreDTI
is related to: Connectome Mapping Toolkit
is related to: TORTOISE
is related to: MITK Diffusion
is related to: MRtrix
is related to: MIPAV: Medical Image Processing and Visualization
is related to: DTI Blog
is related to: FSL
has parent organization: University of Chicago; Illinois; USA
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Traumatic brain injury |
NINDS |
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THIS RESOURCE IS NO LONGER IN SERVICE |
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nlx_153906 |
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SCR_001637 |
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2026-08-10 09:31:29 |
0 |
FSL extensions
Resource Report
Resource Website
1+ mentions
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FSL extensions (RRID:SCR_009472)
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FSL extensions
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software repository, software resource
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A reference for modifications, extensions, and utilities for the FMRIB Software Library (FSL).
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magnetic resonance
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
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nlx_155619 |
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SCR_009472 |
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2026-08-10 09:33:42 |
2 |
BASH4RfMRI
Resource Report
Resource Website
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BASH4RfMRI (RRID:SCR_005970)
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software resource
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THIS RESOURCE IS NO LONGER IN SERVICE, documented July 23, 2015. Of note: most functions have been integrated in 1000 Functional Connectomes Project (www.nitrc.org/projects/fcon_1000). This package is not updated, thus please visit 1000 Functional Connectomes Project site and download relevant bash scripts. BASH Scripts for a resting-state functional MRI study. The functions include seed-based correlation analysis, amplitude analysis and independent component analysis. Note: this tool is just a plug-in for FSL, AFNI and FreeSurfer. Thus, you need have them before you use BASH4RfMRI.
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algorithm or reusable library, information theory, spectral analysis, correlation, multivariate analysis, platform or development environment, magnetic resonance
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
is related to: Analysis of Functional NeuroImages
is related to: FreeSurfer
is related to: 1000 Functional Connectomes Project
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THIS RESOURCE IS NO LONGER IN SERVICE |
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nlx_151343 |
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SCR_005970 |
BASH Scripts, bash-rs-fcmri |
2026-08-08 11:58:32 |
0 |
Segmentation of Hippocampus Subfields
Resource Report
Resource Website
1+ mentions
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Segmentation of Hippocampus Subfields (RRID:SCR_005996)
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ASHS
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image analysis software, software application, software resource, segmentation software, data processing software
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A software package for automatic segmentation of hippocampal subfields in magnetic resonance imges. Given a pair of T1-weighted and T2-weighted images (the latter acquired using a protocol tuned for hippocampus imaging), ASHS will automatically label main subfields of the hippocampus, and some extra-hippocampal structures, using multi-atlas segmentation. The main method is described in the Yushkevich et al. 2011 Neuroimage paper (http://tinyurl.com/cffrp3p). * execution requires: Advanced Normalization Tools, FSL
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hippocampus, mri, t1-weighted image, t2-weighted image, ca1, ca2, ca3, statistical modeling, magnetic resonance
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: ANTS - Advanced Normalization ToolS
is related to: FSL
has parent organization: Harvard Medical School; Massachusetts; USA
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PMID:19405131
PMID:20600984 |
GNU General Public License |
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nlx_151370 |
http://www.nitrc.org/projects/ashs |
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SCR_005996 |
Automatic Segmentation of Hippocampal Subfields, HippocampalSubfieldSegmentation |
2026-08-10 09:32:43 |
8 |
Rodent Brain Extraction Tool
Resource Report
Resource Website
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Rodent Brain Extraction Tool (RRID:SCR_002538)
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rBET
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software application, data processing software, image processing software, software resource
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A modified version of the Brain Extraction Tool (BET) that can process rodent brains.
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magnetic resonance
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
has parent organization: King's College London; London; United Kingdom
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Free, Available for download, Freely available |
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nlx_155945 |
http://www.nitrc.org/projects/rbet |
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SCR_002538 |
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2026-08-10 09:31:45 |
0 |
DW-MRI registration in FSL
Resource Report
Resource Website
1+ mentions
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DW-MRI registration in FSL (RRID:SCR_009461)
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DW-MRI registration in FSL
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software application, registration software, software resource, image analysis software, data processing software
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This code registers linearly and non-linearly Diffusion Weighted Magnetic Resonance Images (DW-MRIs) by extending FLIRT (linear registration of 3D scalar volumes) and FNIRT (non-linear registration of 3D scalar volumes) in the FMRIB Software Library (FSL) to work with 4D volumes. The basis for registering DW-MRIs is the concept of Angular Interpolation (Tao, X., Miller, J. V., 2006. A method forregistering diffusion weighted magnetic resonance images. In: MICCAI. Vol. 9. pp. 594?602), which is implemented and extended to non-linear registration, based on the FLIRT and FNIRT models in FSL. See http://www.frontiersin.org/Brain_Imaging_Methods/10.3389/fnins.2013.00041/abstract. The code does not overwrite FLIRT, FNIRT or any of the FSL C++ code. It is added as FLIRT4D, FNIRT4D and supporting cost functions. The makefiles will however be overwritten to compile the new code, without affecting any version of FSL.
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magnetic resonance, diffusion weighted magnetic resonance image
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
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PMID:23596381 |
FSL License |
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nlx_155607 |
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SCR_009461 |
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2026-08-10 09:33:43 |
2 |
masked ICA (mICA) Toolbox
Resource Report
Resource Website
1+ mentions
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masked ICA (mICA) Toolbox (RRID:SCR_016349)
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mICA
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data analysis software, software application, software toolkit, software resource, data processing software
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Software toolbox based on FSL command line tools that performs masked independent component analysis and related analyses in an integrated way within a spatially restricted subregion of the brain. Used for investigating functional connectivity in functional magnetic resonance imaging data in the field of neuroimaging.
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masked, independent, component, analysis, neuroimaging, restricted, subregion, brain, magnetic, resonance, imaging, data,
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is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: FSL
has parent organization: Hannover Medical School; Lower Saxony; Germany
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Horst Görtz Foundation |
PMID:27168407 |
Free, Freely available, Available for download |
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SCR_016349 |
masked Independent Component Analysis |
2026-08-10 09:35:39 |
1 |
Harvard - Oxford Cortical Structural Atlas
Resource Report
Resource Website
100+ mentions
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Harvard - Oxford Cortical Structural Atlas (RRID:SCR_001476)
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Atlases
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data or information resource, atlas, reference atlas
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Probabilistic atlases covering 48 cortical and 21 subcortical structural areas, derived from structural data and segmentations kindly provided by the Harvard Center for Morphometric Analysis. T1-weighted images of 21 healthy male and 16 healthy female subjects (ages 18-50) were individually segmented by the CMA using semi-automated tools developed in-house. The T1-weighted images were affine-registered to MNI152 space using FLIRT (FSL), and the transforms then applied to the individual labels. Finally, these were combined across subjects to form population probability maps for each label. Segmentations used to create these atlases were provided by: David Kennedy and Christian Haselgrove, Centre for Morphometric Analysis, Harvard; Bruce Fischl, the Martinos Center for Biomedical Imaging, MGH; Janis Breeze and Jean Frazier from the Child and Adolescent Neuropsychiatric Research Program, Cambridge Health Alliance; Larry Seidman and Jill Goldstein from the Department of Psychiatry of Harvard Medical School.
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male, female, t1-weighted image, cortical, subcortical, neuroanatomy, cortex
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has parent organization: Harvard University; Cambridge; United States
is a plug in for: FSL
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Healthy |
NCRR R01 RR16594-01A1;
NIMH K01 MH01798;
NINDS R01 NS052585-01;
NIMH K08 MH01573 |
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Free, Freely available |
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nlx_152707 |
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SCR_001476 |
, Harvard Oxford Cortical Structural Atlas, Harvard-Oxford cortical and subcortical structural atlases, Harvard Oxford Atlas |
2026-08-09 09:03:11 |
154 |
NeuroImaging Tools and Resources Collaboratory (NITRC)
Resource Report
Resource Website
100+ mentions
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NeuroImaging Tools and Resources Collaboratory (NITRC) (RRID:SCR_003430)
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NITRC
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data or information resource, data repository, portal, software repository, service resource, software resource, community building portal, storage service resource
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Software repository for comparing structural (MRI) and functional neuroimaging (fMRI, PET, EEG, MEG) software tools and resources. NITRC collects and points to standardized information about structural or functional neuroimaging tool or resource.
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collaboration, information, resource, structural, functional, neuroimaging, MRI, fMRI, EEG, MEG, PET
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is used by: NIF Data Federation
is used by: Consortium for Reliability and Reproducibility
is used by: DataLad
is recommended by: National Library of Medicine
lists: Dipy
lists: 3DMeshMetric
lists: MPScope
lists: VectorValuedHistogramNormalizer
lists: Faceted Search Based Ontology Visualizer
lists: Morphometry BIRN
lists: Colin 3T/7T High-resolution Atlas
lists: CMFreg
lists: BrainFX
lists: dinifti
lists: Center for Computational Biology at UCLA
lists: Convert MNI coordinates to or from XYZ
lists: Licensing issues in software and data
lists: Local Binary Pattern Analysis Tools for MR Brain Images
lists: MIView
lists: uManager
lists: Penn Hippocampus Atlas
lists: RapidArt
lists: Scribe
lists: ShapeWorks
lists: Vervet Probabilistic Atlas
lists: Talairach Daemon
lists: ADHD-200 Preprocessed Data
lists: LORIS - Longitudinal Online Research and Imaging System
lists: NVM
lists: Maps4Mipav (Exploratory JIST)
lists: Autism Tissue Program
lists: MEG Tools
lists: PyNIfTI
lists: LONI Visualization Tool
lists: Mind Research Network - COINS
lists: OpenElectrophy
lists: CIFTI Connectivity File Format
lists: 3DSlicerLupusLesionModule
lists: BrainNetworkConstructionAnalysisPlatform
lists: COMPARE
lists: Data Format Tools
lists: GesTr
lists: I/OWA
lists: MINC Example files
lists: cbiNifti: Matlab/Octave Nifti library
lists: BRAINSCut
lists: C-PAC
lists: Connectir
lists: DicomBrowser
lists: Hitachi Optical Topography System
lists: Net Station API
lists: imcalc: SPM batch image calculator
lists: BRAINSCortex
lists: Insight Segmentation and Registration Toolkit
lists: LONI Debabeler
lists: LONI Pipeline Processing Environment
lists: NiLearn
lists: MRI Studio
lists: BraVa
lists: Brede Wiki
lists: Center for Functional Neuroimaging Technologies
lists: Philips Users Community
lists: medInria
lists: Beijing: Eyes Open Eyes Closed Study
lists: vIST/e
lists: Camino
lists: Diffusion Tensor Imaging ToolKit
lists: TORTOISE
lists: NIDAG: Neuroimaging Data Access Group
lists: MRI CVPR
lists: vuTools
lists: Medical Image Processing and Visualization in Virtual Environments
lists: Brainstorm
lists: Atlas3D
lists: FMRISTAT - A general statistical analysis for fMRI data
lists: FreeSurfer
lists: Rosetta Bit
lists: Laboratory of Neuro Imaging
lists: Group ICA of fMRI Toolbox
lists: Hierarchical Attribute Matching Mechanism for Elastic Registration
lists: Internet Brain Segmentation Repository
lists: Neural ElectroMagnetic Ontologies (NEMO) Project
lists: Wavelet-based Image Fusion
lists: ITK-SNAP
lists: Internet Brain Volume Database
lists: Statistical non-Parametric Mapping
lists: VoxBo
lists: NITRC Computational Environment
lists: Spatially Constrained Parcellation
lists: Cluster reporter
lists: Cluster Extent Correction
lists: 4D Atlases Construction
lists: CIGAL
lists: CleanLine
lists: Computational Morphometry Toolkit
lists: Cognitive Paradigm Ontology
lists: aBEAT
lists: MR Connectome Automated Pipeline
lists: International Neuroinformatics Coordinating Facility
lists: Functional Regression Analysis of DTI Tract Statistics
lists: MCIC
lists: MGDM: Multi Geometric Deformable Model
lists: MIAS Registration Toolkit
lists: Medical Image Visualization and Analysis
lists: Microstructural correlation toolbox
lists: MisterI
lists: MriWatcher
lists: Multiple Correlation Function Tool
lists: NITRC Community Conferences Workshops and Meetings
lists: BRAINSFit
lists: INCF Software Center
lists: BrainVision Analyzer
lists: COGNISION
lists: DPARSF
lists: GLIRT
lists: MINC
lists: Group Level Imputation of Statistic Maps
lists: MRIcron
lists: Inter-Group Registration Toolbox
lists: MCML and CONV
lists: MEGSIM
lists: MIRIAD
lists: MRI Defacer
lists: MS lesion segmentation challenge 2008
lists: Measure Projection Toolbox
lists: Mindboggle
lists: Mindboggle-101 atlases
lists: ModelGUI
lists: Multi-Modal MRI Reproducibility Resource
lists: MultiTracer
lists: Multicomponent T2 estimation with stimulated echo correction
lists: NCANDA: Data Integration Component
lists: NFT
lists: Net Station EEG Software
lists: Network Based Statistic Toolbox
lists: NeuroScope
lists: Numerical Fibre Generator
lists: PSTNet: MRI Simulator
lists: cortex
lists: iBEAT
lists: M3
lists: Group ICA Of EEG Toolbox
lists: 4D-PARSeR Pathological Anatomy Regression via Segmentation and Registration
lists: Automatic Segmentation Tool Adapter
lists: DTI-TEMPLATE-RHESUS-MACAQUES
lists: LONI Provenance Editor
lists: MNI N3
lists: MRI Digital Projection System
lists: NIDB - Neuroinformatics Database
lists: NIPY
lists: NIRAL Utilities
lists: NIRx NIRS Neuroimaging
lists: NIRx2nirs: A NIRx to .nirs data converter
lists: NITRC Enhanced Services
lists: NITRC GForge Extensions
lists: NPTK
lists: NeuroImaging Analysis Kit (NIAK)
lists: NiBabel
lists: NiftyRec
lists: Nipype
lists: Nirfast
lists: Nitime
lists: Non-Rigid Image Registration Evaluation Project
lists: Normative Independent Component Analysis
lists: OEI: fMRI compatible olfactometer
lists: ORS Visual SI
lists: OpenMEEG
lists: PANDA
lists: PESTICA fMRI Physio Detection/Correction
lists: PHYCAA+: adaptive physiological noise correction for BOLD fMRI
lists: ParaView
lists: Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR)
lists: Presentation
lists: PySurfer
lists: Pythagorean Displacement and Motion Regressors
lists: Quantitative Diffusion Tools
lists: R-package for adaptive DWI analysis
lists: R-package for adaptive fMRI analysis
lists: REX
lists: RFT FDR
lists: ROBEX
lists: RT Image
lists: Resource Ontology Discussion Group
lists: Rodent Brain Extraction Tool
lists: Rodent Cortical Thickness Analysis
lists: S-rep Fitting Statistics and Segmentation
lists: SCIRun
lists: SCRalyze
lists: SOCK
lists: SPHARM-MAT
lists: SPHARM-PDM Toolbox
lists: SRI24 Atlas: Normal Adult Brain Anatomy
lists: Seg3D
lists: ShapeComplexAtlas
lists: Signed Differential Mapping
lists: Sleuth
lists: Slice:Drop
lists: Slicer3 Example Modules
lists: Source Information Flow Toolbox
lists: Spanish Resting State Network
lists: Spatial Analysis 3D
lists: Stereoscopic Atlas of Intrinsic Brain Networks
lists: UNC Infant 0-1-2 Atlases
lists: UNC Primate Brain Atlas
lists: XCEDE Schema
lists: peak nii
lists: pydicom
lists: pyxnat
lists: scikit-learn
lists: shapeAnalysisMANCOVA - SPHARM tools
lists: VMTK in 3D Slicer
lists: 3D Interactive Chemical Shift Imaging
lists: BRAINSSurfaceStats
lists: Brain lesion segmentation tool using SVM
lists: Diffusion Tractography with Kalman Filter
lists: Fast Nonlocal Means for MRI denoising
lists: Monte Carlo Simulation Software: tMCimg
lists: Web Interfaces for Multiscale Images
lists: STAPLE
lists: Segmentation Validation Engine
lists: Spatial Statistical Parametric Mapping
lists: SpineSegmentation module for 3DSlicer
lists: Stochastic Tractography System
lists: Subject Library
lists: TAPIR
lists: TARQUIN
lists: Template Image Processing Library
lists: TetraMetrix
lists: TractoR: Tractography with R
lists: Triangle BioSystems
lists: TumorSim
lists: TurtleSeg
lists: UNC Human Brain Atlas
lists: VR Worlds 2
lists: Vaa3D
lists: ValMap: simple statistical mapping tool
lists: WFU Biological Parametric Mapping Toolbox
lists: WFU Pipeline
lists: Working Memory Trainer
lists: vis: SPM Visualized Statistics toolbox
lists: Synchronized Histological Image Viewing Architecture
lists: LONI ShapeViewer
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lists: FFT Library
lists: Automated recognition of brain region mentions in neuroscience literature.
lists: NUTMEG
lists: Cognitive Atlas
lists: Mouse BIRN Atlasing Toolkit
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lists: ABC (Atlas Based Classification)
lists: Allen Brain Atlas API
lists: Viking Viewer for Connectomics
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lists: ArtRepair for robust fMRI
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lists: Segmentation of Hippocampus Subfields
lists: ASL data processing tool box
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lists: BrainColor: Collaborative Open Labeling Online Resource
lists: Registry Builder Data Harmonization and Aggregation Tool
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lists: Neurobiological Image Management System
lists: BRAINSTools
lists: MeshValmet: Validation Metric for Meshes
lists: BrainSuite
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lists: BrainVoyager Brain Tutor
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lists: Monte Carlo eXtreme
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lists: VAMCA
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lists: CLEAVE
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lists: Open Access Series of Imaging Studies
lists: BioSig: An Imaging Bioinformatics System for Phenotypic Analysis
lists: xjView: A Viewing Program For SPM
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lists: JIST: Java Image Science Toolkit
lists: Functional Analysis of Diffusion Tensor
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lists: cmrep
lists: 3D DTI Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood
lists: AutoSeg
lists: BXH/XCEDE Tools
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lists: Best Practices for Software Development
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lists: C8: Corpus Callosum Computations
lists: CAMINO-TRACKVIS
lists: CANDI Share: Schizophrenia Bulletin 2008
lists: CBS High-Res Brain Processing Tools
lists: CCSeg - Corpus Callosum Segmentation
lists: Cerebral Blood Flow Database and Analysis Pipeline
lists: Create DWI Atlas
lists: DFBIdb
lists: DIAMOND
lists: DICOM UploadGUI
lists: DOTS WM tract segmentation
lists: DTI Fiber Tract Statistics
lists: DW-MRI registration in FSL
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lists: Diffusion MRI at DKFZ Heidelberg
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lists: FBIRN Image Processing Scripts
lists: FSL extensions
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lists: Fiber Tracking Tool
lists: Fiber-tracking based on Finsler distance
lists: FiberViewerLight
lists: Finsler tractography module for Slicer
lists: Fluid Registration and Atlas Toolkit
lists: Framework for Open Programmatic Access
lists: Functional Connectivity Community
lists: Functional ROI Atlas
lists: Functional and Structural Neuroimaging Journals Listing
lists: GAMBIT
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lists: Generalized PPI Toolbox
lists: Group Information Guided ICA
lists: Groupwise Image Registration Toolbox
lists: HD Neuro-Informatics
lists: Hitachi2nirs
lists: IDeA Lab brain image processing suite
lists: INCF Neuroimaging Data Sharing
lists: INIA19 Primate Brain Atlas
lists: JHU Proj. in Applied Medical Imaging
lists: JIST Resources for Algorithm Development
lists: BRAINSROIAuto
lists: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI
lists: Landman NeuroImaging Tools
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lists: Multi-Echo Independent Component Regression Group-Level Connectivity Dataset
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lists: factory t1 dti
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lists: Brainsight
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lists: GIMIAS
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lists: INVIZIAN
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lists: Connectome File Format
lists: Connectome Viewer
lists: Cytoseg
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lists: DRAMMS
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lists: DTI BrainImageScope
lists: DTI-Reg
lists: DTIProcess ToolKit
lists: DWI/DTI Quality Control Tool: DTIPrep
lists: Diffusional Kurtosis Estimator
lists: Distributome
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lists: EEGVIS
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lists: GMAC: A Matlab toolbox for spectral Granger causality analysis of fMRI data
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lists: MagVenture: MagPro Magnetic Stimulator
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lists: MarsBaR region of interest toolbox for SPM
lists: MazeSuite
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lists: NCIGT Fast Imaging Library
lists: NeuroWeb - NeuroImaging Database
lists: Neuroimaging Made Easy Blog
lists: Neurophysiological Biomarker Toolbox
lists: SVV
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lists: UNC/Utah NAMIC DTI Fiber Analysis Framework
lists: caGWAS
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lists: elastix
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lists: MACH
lists: fMRI Grocer
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lists: fanDTasia Java Applet: DT-MRI Processing
lists: g.BSanalyze
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lists: ProbabilisticBiasCorrection
lists: Program for optimal design of blocked fMRI experiments
lists: QCQP
lists: REST: a toolkit for resting-state fMRI
lists: Robust Biological Parametric Mapping
lists: SPM SS - fMRI functional localizers
lists: Solar Eclipse Imaging Genetics tools
lists: VPixx: VIEWPixx /3D
lists: resting-state pediatric imaging template
lists: DATAPixx
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lists: Wisconsin White Matter Hyperintensities Segmentation Toolbox
lists: COBRE
lists: AngioCalc Cerebral Aneurysm Calculator
lists: USC Multimodal Connectivity Database
lists: BRAINSConstellationDetector
lists: ASA - Advanced Source Analysis
lists: BRAINSTracer
lists: EYE-EEG (combined eye-tracking & EEG)
lists: BrainVoyager
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lists: Neuroimaging in Python
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lists: BrainVisa Morphology extensions
lists: VPixx: VIEWPixx
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lists: NeuronJ: An ImageJ Plugin for Neurite Tracing and Quantification
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lists: NINDS Repository
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lists: ODIN
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lists: MBF BioScience: Stereo Investigator
lists: studyforrest.org
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lists: 3dsvm
lists: 7T Structural MRI scans ATAG
lists: Atlases of amygdala and hippocampus for pediatric populations
lists: BetA-Series COrrelation
lists: bic-mni-models
lists: BiofilmQuant
lists: Biomag Discussion Group on Yahoo
lists: Brain Entropy in space and time (BEst)
lists: Brainnetome Atlas Viewer
lists: Brainnetome fMRI toolkit
lists: BROCCOLI
lists: C-MIND Database
lists: CARLsim: a GPU-accelerated SNN Simulator
lists: Clinical Toolbox for SPM
lists: CMIND PY
lists: COST
lists: dcm2nii
lists: DICOMConvert
lists: Displacement Field Viewer
lists: DTI denoising
lists: Efficient Longitudinal Upload of Depression in the Elderly (ELUDE)
lists: Efficient Permutation Testing
lists: DTI-TK
lists: ERPwavelab
lists: ExPosition Packages
lists: Fast T2 relaxation data analysis with stimulated echo correction and non-local spatial regularisation
lists: Forward: Accurate finite element electromagnetic head models
lists: freesurfR
lists: Functional Connectivity Analysis Tool for near-infrared spectroscopy data
lists: GazeReader
lists: gCCA
lists: Generation R Pediatric MRI Resources
lists: GIMME
lists: GLMdenoise: a fast, automated technique for denoising task-based fMRI data
lists: GraphVar: A toolbox for comprehensive graph analyses of functional brain connectivity
lists: HAMMER: Deformable Registration
lists: HBM Hackathon
lists: HDBIG
lists: High-quality diffusion-weighted imaging of Parkinsons disease
lists: MGA - Multimodal Glioma Analysis
lists: Image Synthesis Tools
lists: Imeka Tractography Service
lists: International Imaging Genetics Conference
lists: Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0
lists: Iterative dual-regression with sparse prior
lists: Joint Anisotropic LMMSE Filter for Stationary Rician noise removal in DWI
lists: KWScene: MRML-based Atlas and Scene Builder/Reader/Writer
lists: L-Neuron
lists: Laplace Beltrami Filter on QuadEdge Meshes
lists: libSBML
lists: Lightweight Data Pipeline
lists: Longitudinal MS Lesion Imaging Archive
lists: MARS (Multi-Atlas Robust Segmentation)
lists: minc-toolkit
lists: minc-toolkit-testsuite
lists: MISST - Microstructure Imaging Sequence Simulation ToolBox
lists: MRI Neuroanatomy Labeling Services
lists: MRIcroS
lists: Multivariate General Linear Models (MGLM) on Riemannian Manifolds
lists: Neoseg
lists: NeoSegPipeline
lists: NeuriteTracer
lists: NeuroElf
lists: Neuron-C
lists: NIH Pediatric MRI Data Repository
lists: NIH-CIDI Lung Segmentation Tool
lists: NiiStat
lists: Northwestern University Schizophrenia Data and Software Tool (NUSDAST)
lists: Notion ResearchPACS
lists: NTU-DSI-122: a DSI template in ICBM-152 space
lists: OpenViBE
lists: OpenWalnut
lists: Orientation Distribution Function in Constant Solid Angle (CSA-ODF)
lists: Parkinsons Disease Discovery Database
lists: Prediction and Diagnosis for Depression and Schizophrenia
lists: Preprocessed Connectomes Project
lists: Principal Components Analysis of Scalar, Vector, and Mesh Vertex Data
lists: Ruby NIfTI
lists: SCORE
lists: SFMProject
lists: ShapePopulationViewer
lists: Simulated DW-MRI Brain Data Sets for Quantitative Evaluation of Estimated Fiber Orientations
lists: SPIKECOR: fMRI tool for automated correction of head motion spikes
lists: Spinal Cord Toolbox
lists: Stark Cross-Sectional Aging
lists: Brain Coactivation Map
lists: Multiscale Object Orientation Simulation Environment
lists: Striatal Subregional VOImap
lists: Topographica
lists: Turbo-BrainVoyager
lists: CRL Unbiased and Deformable Spatiotemporal Atlas of the Fetal Brain
lists: UNC-Wisconsin Neurodevelopment Rhesus MRI Database
lists: Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX)
lists: VMTK in 3D Slicer
lists: Wisconsin Cortical Thickness Analysis (CTA) Toolbox
lists: XFSL: An FSL toolbox
lists: XNBC
lists: YMDTI: Diffusion Tensor Images of Healthy Young Males
lists: BraTumIA (Brain Tumor Image Analysis)
lists: CAWorks
lists: Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND)
lists: Graph Theory GLM (GTG) MATLAB Toolbox
lists: Functional Mixed Processes Models
lists: Papaya
lists: Parallel Stochastic Ion Channel Simulator
lists: Advanced Connectivity Analysis (ACA)
lists: International Imaging Genetics Conference
lists: Analyze Software System
lists: Optseq
lists: ENIGMA-DTI Pipeline
lists: Umea Brain Arteries
lists: MetaSearch
lists: BrainBox
lists: BluePyOpt
lists: MultiXplore
lists: Automatic Tractography-based Parcellation Pipeline
lists: Epilepsy T1 and Hippocampal Segmentation Datasets
lists: Mixed Effect Model of Genetic-Set and Environment Interaction
lists: masked ICA (mICA) Toolbox
lists: Altered States Database
lists: User Friendly Functional Connectivity - UF²C
lists: Intra- and inter-scanner reliability of RS-fMRI BOLD and ASL with eyes closed vs. eyes open
lists: Region to Region
lists: Waxholm Space Atlas of the Sprague Dawley Rat Brain
lists: Nutil - Neuroimaging utilities
lists: MeshView
lists: vini: A viewer for fMRI data
lists: brainGraph
lists: Diffusion Toolkit
lists: Neurodocker
lists: HeuDiConv: a heuristic-centric DICOM converter
lists: Knowing what you know (kwyk) - Bayesian Brain Parcellation
lists: Rhesus Macaque Brain Atlases
lists: MIITRA atlas
lists: MonkeyCBP
lists: ReproNim/containers
lists: ReproMan
lists: ABCD-ReproNim Course
lists: Ventricular Morphometry Analysis System
lists: ONPRC18 Multimodal MRI Atlas
lists: volBrain
lists: Waxholm Space
is affiliated with: Manual Align RTS2000
is related to: University of California; San Diego;National Center for Microscopy and Imaging Research - NCMIR
has parent organization: Harvard University; Cambridge; United States
has parent organization: NIH Blueprint for Neuroscience Research
is parent organization of: Licensing issues in software and data
is parent organization of: NITRC Enhanced Services
is parent organization of: Resource Ontology Discussion Group
is parent organization of: NITRC-IR
is parent organization of: 1000 Functional Connectomes Project
is parent organization of: NYU CSC TestRetest
is parent organization of: NITRC Books
is parent organization of: NITRC Community
is parent organization of: ABIDE
is parent organization of: COBRE
is parent organization of: Group Sparse Canonical Correlation Analysis
is parent organization of: Challenge Competitions Collection
is parent organization of: 1000 Functional Connectomes Project
|
|
NIH Blueprint for Neuroscience Research ;
NIMH ;
NIDA ;
NIBIB U24 EB023398;
NINDS R44 NS074540 |
PMID:26044860
PMID:18999128 |
Free, Freely available |
|
nif-0000-00202, r3d100010784, r3d100011515 |
https://doi.org/10.17616/R3W32N |
|
|
SCR_003430 |
Neuroimaging Informatics Tools and Resources Clearinghouse, , NeuroImaging Tools and Resources Collaboratory, Neuroimaging Informatics Tools Resources Clearinghouse, NITRC - Neuroimaging Informatics Tools and Resources Clearinghouse, NITRC - Neuroimaging Informatics Tools Resources Clearinghouse |
2026-08-10 09:32:00 |
374 |
Debian
Resource Report
Resource Website
50+ mentions
|
Debian (RRID:SCR_006638)
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Debian
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data or information resource, source code, database, software repository, software resource
|
Debian is Linux distribution composed of free and open source software, developed by community supported Debian Project, which was established by Ian Murdock on August 16, 1993.Debian comes with over 59000 packages (precompiled software that is bundled up in nice format for easy installation on your machine), package manager (APT), and other utilities that make it possible to manage thousands of packages on thousands of computers as easily as installing single application.
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operating system, software package, FASEB list
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lists: GUARDD
lists: FACS
lists: SNAVI
lists: Fusion Analyser
lists: GEOquery
lists: MIMOSA
lists: RNAcontext
lists: AffyRNADegradation
lists: Patchwork
lists: GraBCas
lists: GENIE3
lists: MODENT - A Tool For Reconstructing Gene Regulatory Networks
lists: Megraft
lists: PeptideProphet
lists: VARiD
lists: Flicker
lists: ARACHNE
lists: Quant
lists: riboPicker
lists: cn.FARMS
lists: ProteinProphet
lists: dbSTS
lists: flowPeaks
lists: SODOCK
lists: PEPPER
lists: POPBAM
lists: Micro-Analyzer
lists: MuTect
lists: Mfuzz
lists: PGS
lists: TAPyR
lists: ContEst
lists: FPSAC
lists: FlipFlop
lists: SRMA
lists: Pindel
lists: PhenoFam
lists: DSRC
lists: SOAP
lists: TriageTools
lists: StringTie
lists: SplitSeek
lists: BLASR
lists: Bowtie
lists: Barrnap
lists: MUSCLE
lists: GimmeMotifs
lists: massiR
lists: CUDA-EC
lists: Illuminator
lists: SplicePlot
lists: SLOPE
lists: PARalyzer
lists: VAAL
lists: BreakSeq
lists: ProGlycProt
lists: OmicsOffice for NGS SeqSolve
lists: TileQC
lists: NGSUtils
lists: QUAST
lists: GenomicTools
lists: piCALL
lists: SNPchip
lists: TALLYMER
lists: SABER
lists: wateRmelon
lists: QualiMap
lists: BFCounter
lists: ADMIXTURE
lists: OLIN
lists: DEXUS
lists: limmaGUI
lists: KAnalyze
lists: oneChannelGUI
lists: BeadDataPackR
lists: affylmGUI
lists: SAMBLASTER
lists: PyLOH
lists: fRMA
lists: CYCLE
lists: FARMS
lists: MACAT
lists: GlyProt
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lists: Sequedex
lists: DictyOGlyc
lists: ToppCluster
lists: Biocatalogue - The Life Science Web Services Registry
lists: ProbRNA
lists: HAPLOPAINTER
lists: Chilibot: Gene and Protein relationships from MEDLINE
lists: GERMLINE
lists: FACTA+.
lists: CisGenome
lists: asSeq
lists: unifiedWMWqPCR
lists: HOMOZYGOSITYMAPPER
lists: Prediction of Amyloid Structure Aggregation
lists: InterMine
lists: TANGO
lists: CQN
lists: MEME Suite - Motif-based sequence analysis tools
lists: pRESTO
lists: S-MART
lists: PhosphoSitePlus: Protein Modification Site
lists: myExperiment
lists: DINDEL
lists: Skylign
lists: PEDIGRAPH
lists: ADaCGH2
lists: CCAT
lists: AnimalTFDB
lists: TEMP
lists: CanSNPer
lists: Candida Genome Database
lists: SamSPECTRAL
lists: InteroPorc
lists: MetaBase
lists: Pecan
lists: cisRED: cis-regulatory element
lists: AffyPipe
lists: SHORTY
lists: BISC
lists: Pathway Commons
lists: Cake
lists: SNVer
lists: WebGeSTer DB
lists: FlyFactorSurvey
lists: ASPGD
lists: TcoF
lists: cpnDB: A Chaperonin Database
lists: ZOOM
lists: CAMERA - Collection of annotation related methods for mass spectrometry data
lists: BEETL-fastq
lists: NGSrich
lists: ShotGun
lists: Iterative Signature Algorithm
lists: SBARS
lists: SNPAAMapper
lists: Autophagy Database
lists: RUbioSeq
lists: COSMIC - Catalogue Of Somatic Mutations In Cancer
lists: EchoBASE
lists: QualitySNPng
lists: Pathview
lists: pymzML
lists: RopeBWT2
lists: ExomeDepth
lists: NetPathMiner
lists: leeHom
lists: PurBayes
lists: libCSAM
lists: SuperPred: Drug classification and target prediction
lists: HGNC
lists: Coding Potential Calculator
lists: T3DB
lists: CPTRA
lists: BioNumbers
lists: GATE
lists: ProRata
lists: GreenPhylDB
lists: BREAKDANCER
lists: GeneFisher
lists: tweeDEseq
lists: HYDEN
lists: Eukaryotic Linear Motif
lists: Primer3Plus
lists: MethylAid
lists: Triplex
lists: Distant Regulatory Elements
lists: hot scan
lists: MFEprimer
lists: Proteome Analyst Specialized Subcellular Localization Server
lists: mrsFAST
lists: BioJS
lists: FastSNP
lists: Gene Set Enrichment Analysis
lists: Pipeliner
lists: ms lims
lists: GenePattern
lists: rBiopaxParser
lists: QDNAseq
lists: MutDB
lists: Piano
lists: NovelSeq
lists: MAGE-TAB
lists: Database of Interacting Proteins (DIP)
lists: Weighted Gene Co-expression Network Analysis
lists: Blood Group Antigen Gene Mutation Database
lists: drFAST
lists: pairheatmap
lists: MiST - Microbial Signal Transduction database
lists: AltAnalyze - Alternative Splicing Analysis Tool
lists: SplicingCompass
lists: deFuse
lists: Assembly Based ReAligner
lists: ggbio
lists: miR-PREFeR
lists: ALDEx2
lists: HTqPCR
lists: NanoStringNorm
lists: T-profiler
lists: Snakemake
lists: jmzTab
lists: MIPgen
lists: Bpipe
lists: PoPoolation
lists: L-Measure
lists: MultiPhen
lists: PheWAS R Package
lists: InsertionMapper
lists: Quantitative Enrichment of Sequence Tags
lists: INMEX
lists: Segway - a way to segment the genome
lists: SeWeR - SEquence analysis using WEb Resources
lists: TagDust
lists: BSRD
lists: DER Finder
lists: Stem Cell Discovery Engine
lists: Kdetrees
lists: Tree and reticulogram REConstruction
lists: BioPig
lists: NCBI BioSystems Database
lists: Distributed String Mining Framework
lists: NEWT
lists: PILGRM
lists: Selectome: a Database of Positive Selection
lists: SVMerge
lists: Parseq
lists: SVseq
lists: Small Molecule Pathway Database
lists: miRNAKey
lists: DELLY
lists: Apo and Holo structures DataBase
lists: BioSample Database at EBI
lists: MetaPhyler
lists: MG-RAST
lists: SLIQ
lists: SOPRA
lists: Information Hyperlinked Over Proteins
lists: AmphoraNet
lists: SINA
lists: SSPACE
lists: Percolator: Semi-supervised learning for peptide identification from shotgun proteomics datasets
lists: STING Report
lists: G-BLASTN
lists: RNA-eXpress
lists: MethPipe
lists: SoyBase
lists: Strelka2
lists: RUM
lists: SPOT - Biological prioritization after a SNP association study
lists: VFS
lists: PHAge Search Tool
lists: MLTreeMap
lists: SEECER
lists: GeneTalk
lists: ERANGE
lists: rQuant
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lists: EHRtemporalVariability
lists: HmtVar
lists: SnpHub
lists: Online Peri-Event Time Histogram for Open Ephys
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lists: clipcrop
lists: cn.mops
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lists: NCBI BioProject
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lists: metabnorm
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lists: STAR
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lists: UniCarb-DB
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lists: DecGPU
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lists: ABNER
lists: A Classification of Mobile genetic Elements
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lists: ALCHEMY
lists: AETIONOMY
lists: ABS: A Database of Annotated Regulatory Binding Sites From Orthologous Promoters
lists: ALBERT
lists: ALOHOMORA
lists: Alternate splicing gallery
lists: Allele Frequencies in Worldwide Populations
lists: AmpliconTagger
lists: Molecular Dynamics Workflow (BioKepler)
lists: ape
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lists: Assisted Model Building with Energy Refinement (AMBER)
lists: Aroma.affymetrix
lists: ANDES
lists: ASSOCIATIONVIEWER
lists: ArrayMiner
lists: ASPEX
lists: The Alternatve Splicing Database
lists: AutoAssemblyD
lists: AutoDock Vina
lists: BAIT
lists: BamView
lists: Avogadro
lists: ArrayPipe
lists: Athena
lists: BLAT
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lists: BayesEpiModels
lists: BatMeth
lists: BeetleBase
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lists: naiveBayesCall
lists: BarraCUDA
lists: BCBtoolkit
lists: BioConda
lists: BAR
lists: BiG-SLiCE
lists: SVM based method for predicting beta hairpin structures in proteins
lists: betaVAEImputation
lists: BiNGO: A Biological Networks Gene Ontology tool
lists: Bioinformatics Toolkit
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lists: CATALYST
lists: CATH: Protein Structure Classification
lists: CAT
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lists: CATdb: a Complete Arabidopsis Transcriptome database
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lists: ClustVis
lists: Comparative Metatranscriptomics Workflow
lists: CMap
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lists: CITE-seq-Count
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lists: Chromosome Scale Assembler
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lists: CRISPy-web
lists: CONTRA
lists: CovalentDock Cloud
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lists: COGEME Phytopathogenic Fungi and Oomycete EST Database
lists: DANPOS2
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lists: CorrDrugTumorMSI
lists: DAMBE
lists: D-EE
lists: CoryneRegNet
lists: ΔG prediction server
lists: DIAMOND
lists: CYANA
lists: Datasets2Tools
lists: DEXSeq
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lists: NCBI database of Genotypes and Phenotypes (dbGap)
lists: DBTSS: Database of Transcriptional Start Sites
lists: dbSNP
lists: DiffBind
lists: DETONATE
lists: DiProGB
lists: Descriptions of Plant Viruses
lists: DIME
lists: DicomTypeTranslator
lists: CSDeconv
lists: Dictyostelium discoideum genome database
lists: DSK
lists: DGIdb
lists: DisProt - Database of Protein Disorder
lists: DOMINE: Database of Protein Interactions
lists: eDMR
lists: ECLIPSE
lists: Experimental Design Assistant
lists: Dissect
lists: Evolutionary Couplings Server
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lists: ensembldb
lists: European Genome phenome Archive
lists: EBCall
lists: Ensembl Genomes
lists: EMAN
lists: ENIGMA
lists: DISENTANGLER
lists: Entrez Gene
lists: Ensembl
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lists: EpiGRAPH
lists: EpiDISH R package
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lists: epitopepredict
lists: DrivAER
lists: Variant Effect Predictor
lists: Epigenomics Workflow on Galaxy and Jupyter
lists: Eukaryote Genes
lists: Evex
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lists: EXOMEPICKS
lists: European Variation Archive (EVA)
lists: FANTOM DB
lists: Genome Annotation Generator
lists: FireDB
lists: FGENESH
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lists: FLOSS
lists: fineSTRUCTURE
lists: FastQC
lists: FINDbase Worldwide
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lists: fgsea
lists: FuncAssociate: The Gene Set Functionator
lists: NHLBI Exome Sequencing Project (ESP)
lists: FlyBase
lists: FlexProt: flexible protein alignment
lists: GASV
lists: Fugu Genome Project
lists: Full-Length cDNA Database
lists: FragGeneScan
lists: FunRich: Functional Enrichment analysis tool
lists: FlowSOM
lists: GASSST
lists: GeMoMa
lists: An Integrated Multiple Structure Visualization and Multiple Sequence Alignment Application
lists: GEDIT
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lists: Genome Database for Rosaceae
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lists: Genomic Annotation in Livestock for positional candidate LOci
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lists: Generic GO Term Mapper
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lists: Genome Aggregation Database
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lists: Generic GO Term Finder
lists: Graph2GO
lists: Gene Ontology
lists: Gaggle
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lists: GRASS
lists: Bioinformatic Harvester IV (beta) at Karlsruhe Institute of Technology
lists: Genovar
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lists: Homologous Sequences in Ensembl Animal Genomes
lists: Google
lists: IMGT/HLA
lists: Human Gene Mutation Database
lists: GTDB-Tk
lists: G protein receptor interaction feature finding instrument
lists: HubMed
lists: HPEPDOCK Server
lists: HUGE - Human Unidentified Gene-Encoded large proteins
lists: HAPLOCLUSTERS
lists: HiCUP
lists: International HapMap Project
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lists: Human Gene Connectome Server
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lists: hyfi: software suite for binding site search
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lists: IMGT/StatClonotype
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lists: ImJoy
lists: IMEx - The International Molecular Exchange Consortium
lists: IMG System
lists: HCLUST
lists: Human Splicing Finder
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lists: Identifiers.org
lists: IPD - Immuno Polymorphism Database
lists: IntEnz- Integrated relational Enzyme database
lists: IBIS: Inferred Biomolecular Interactions Server
lists: IMGT - the international ImMunoGeneTics information system
lists: Integr8 : Access to complete genomes and proteomes
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lists: Isaac
lists: Interolog/Regulog Database
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lists: lncRNAdb
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lists: Database oDatabase of Predicted Subcellular Localization for Eukaryotic PDB Chainsf Predicted Subcellular Localization for Eukaryotic PDB Chains
lists: IMG
lists: LTR_FINDER_parallel
lists: LAST
lists: MBGD - Microbial Genome Database
lists: jmzML
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lists: LOCUSMAP
lists: MaizeGDB
lists: long-read-tools
lists: LRPath
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lists: VarMatch
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lists: CCS
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lists: FISH
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lists: Tombo
lists: TopHat-Recondition
is related to: FreeContact
is parent organization of: neurodebian
|
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Free, Freely available |
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nlx_151598 |
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SCR_006638 |
Debian - The universal operating system, Debian GNU/Linux |
2026-08-10 09:32:54 |
52 |
POSSUM
Resource Report
Resource Website
1+ mentions
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POSSUM (RRID:SCR_024950)
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POSSUM
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software application, software resource
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Software tool that produces realistic simulated MRI and FMRI images or time series.
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is a plug in for: FSL
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Free, Freely available |
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SCR_024950 |
Physics-Oriented Simulated Scanner for Understanding MRI |
2026-08-09 09:08:35 |
5 |
Miscvis
Resource Report
Resource Website
|
Miscvis (RRID:SCR_024949)
|
|
software application, software resource
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Software tool to combine background image (raw FMRI or high resolution MRI) with one or two statistics images. Statistics images must be in registration with the background image.
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combine background image with statistics images, statistics images, background image,
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is listed by: FSL
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Free, Freely available |
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SCR_024949 |
|
2026-08-09 09:09:04 |
0 |
FLOBS
Resource Report
Resource Website
|
FLOBS (RRID:SCR_024941)
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FLOBS
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software toolkit, software resource
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Software toolkit for generating optimal basis sets for use in Haemodynamic Response Function convolution in FMRI linear modelling.
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generating optimal basis sets, Haemodynamic Response Function convolution, FMRI linear modelling,
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is a plug in for: FSL
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Free, Freely available, |
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SCR_024941 |
, FMRIB's Linear Optimal Basis Sets, FLOBS:FMRIB's Linear Optimal Basis Sets |
2026-08-09 09:08:35 |
0 |
SUSAN
Resource Report
Resource Website
1+ mentions
|
SUSAN (RRID:SCR_024947)
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SUSAN
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software application, software resource
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Software tool to cover image noise filtering, edge finding and corner finding.
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cover image noise filtering, edge finding, corner finding,
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is listed by: FSL
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Free, Freely available |
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SCR_024947 |
Smallest Univalue Segment Assimilating Nucleus |
2026-08-09 09:08:35 |
2 |
FUGUE
Resource Report
Resource Website
1+ mentions
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FUGUE (RRID:SCR_024948)
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software toolkit, software resource
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Software tools for Echo Planar Imaging distortion correction used in diffusion imaging, functional MRI and perfusion imaging.
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Echo Planar Imaging distortion correction, diffusion imaging, functional MRI, perfusion imaging,
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is listed by: FSL
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Free, Freely available |
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SCR_024948 |
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2026-08-09 09:09:08 |
2 |
FSL-MRS
Resource Report
Resource Website
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FSL-MRS (RRID:SCR_024953)
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software toolkit, software resource
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Software spectroscopy analysis package includes tools for preprocessing of raw spectroscopy data, including coil combination, frequency and phase alignment, and filtering. Spectroscopy processing package that incorporates Bayesian fitting of spectra.
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spectroscopy analysis, raw spectroscopy data preprocessing, coil combination, frequency and phase alignment, filtering
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is a plug in for: FSL
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PMID:33280161 |
Free, Freely available |
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SCR_024953 |
FSL Magnetic Resonance Spectroscopy |
2026-08-09 09:09:04 |
0 |
Multimodal Image Segmentation Tool
Resource Report
Resource Website
1+ mentions
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Multimodal Image Segmentation Tool (RRID:SCR_024927)
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MIST
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software application, software resource
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Software flexible tool for subcortical segmentation. It differs from FIRST in that it can use complementary information in different MRI modalities and is less reliant on manual segmentations.
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subcortical segmentation, FIRST, different MRI modalities complementary information usage,
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is related to: FMRIB’s Integrated Registration and Segmentation Tool
is a plug in for: FSL
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PMID:26477650 |
Free, Freely available |
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SCR_024927 |
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2026-08-09 09:09:08 |
2 |
