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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Epigenie Resource Report Resource Website |
Epigenie (RRID:SCR_017494) | data or information resource, portal, topical portal | Collection of epigenetic data browsers and repositories. Repository of epigenetics tools and databases by EpiGenie team. | Repository, epigenetic, tool, database, EpiGenie, data | Free, Available for download, Freely available | SCR_017494 | 2026-09-03 04:54:39 | 0 | |||||||||||
|
Blobtools Resource Report Resource Website 100+ mentions |
Blobtools (RRID:SCR_017618) | data analytics software, data processing software, data visualization software, software application, software resource | Software tool as modular command line solution for visualisation, quality control and taxonomic partitioning of genome datasets. Used for interrogation of genome assemblies. Assists in primary partitioning of data, leading to improved assemblies, and screening of final assemblies for potential contaminants. | Modular, command, line, solution, visualisation, quality, control, taxonomic, partitioning, genome, dataset, genome assembly, screening, contaminant, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: BlobTools2 |
BBSRC ; James Hutton Institute/Edinburgh University School of Biological Sciences fellowship |
DOI:10.12688/f1000research.12232.1 | Free, Available for download, Freely available | biotools:blobtools | https://github.com/DRL/blobtools, https://bio.tools/blobtools | SCR_017618 | BlobTools | 2026-09-03 04:54:41 | 225 | |||||
|
gene Expression Analysis Resource Resource Report Resource Website 50+ mentions |
gene Expression Analysis Resource (RRID:SCR_017467) | gEAR | analysis service resource, data or information resource, portal, production service resource, service resource, software resource | Portal for visualization and analysis of multi omic data in public and private domains. Enables upload, visualization and analysis of scRNA-seq data. | Visualization, analysis, multi, omic, data, upload, scRNA-seq, BRAIN Initiative |
is recommended by: BRAIN Initiative has parent organization: University of Maryland School of Medicine; Maryland; USA |
Hearing Health Foundation (Hearing Restoration Project) ; NIDCD R01 DC013817; NIMH MH114788; NIMH R24 MH114815 |
Restricted | SCR_017467 | gene Expression Analysis Resource | 2026-09-03 04:54:25 | 91 | |||||||
|
3D DART Resource Report Resource Website 1+ mentions |
3D DART (RRID:SCR_017588) | service resource, software resource, web application | DNA structure modelling server. Web server for generating custom 3D structural models of DNA with control over local and global conformation. | Generating, custom, 3D, structural, model, DNA, conformation | EU ; Netherlands Organization for Scientific Research |
PMID:19417072 | Free, Freely available | SCR_017588 | 3DNA-Driven DNA Analysis and Rebuilding Tool | 2026-09-03 04:54:35 | 1 | ||||||||
|
Ngmlr Resource Report Resource Website 10+ mentions |
Ngmlr (RRID:SCR_017620) | NGMLR | alignment software, data processing software, image analysis software, software application, software resource | Software tool as long read mapper designed to align PacBio or Oxford Nanopore reads to reference genome and optimized for structural variation detection. | Long, read, mapper, align, PacBio, Oxford Nanopore, read, reference, genome, structural, variantion, detection, bio.tools |
is listed by: bio.tools is listed by: Debian |
National Science Foundation ; NHGRI R01 HG006677; NHGRI UM1 HG008898 |
PMID:29713083 | Free, Available for download, Freely available | biotools:ngmlr | https://bio.tools/ngmlr | SCR_017620 | coNvex Gap-cost alignMent for Long Reads | 2026-09-03 04:54:37 | 36 | ||||
|
cytoNet Resource Report Resource Website |
cytoNet (RRID:SCR_017465) | analysis service resource, data processing software, image analysis software, production service resource, service resource, software application, software resource | Cloud based analysis software for cell population microscopy images. Network Analysis of Cell Communities cytoNet image analysis software designed to quantify structure of cell communities from microscope images, using principles of graph theory. | Cell, population, microscopy, image, network, analysis, quantify, structure, BRAIN Initiative | is recommended by: BRAIN Initiative | NSF 1533708 | Free, Freely available | SCR_017465 | 2026-09-03 04:54:37 | 0 | |||||||||
|
IMOTIONS: SMI RED500 Eye Tracker Resource Report Resource Website 1+ mentions |
IMOTIONS: SMI RED500 Eye Tracker (RRID:SCR_017586) | instrument resource | Screen based eye tracker that combines high-speed capabilities at 500 Hz. | Eye, tracker, screen, high, speed, capability, 500Hz | Restricted | SCR_017586 | 2026-09-03 04:54:39 | 1 | |||||||||||
|
Analysis, Visualization, and Informatics Lab-space (AnVIL) Resource Report Resource Website 10+ mentions |
Analysis, Visualization, and Informatics Lab-space (AnVIL) (RRID:SCR_017469) | AnVIL | data or information resource, data repository, portal, project portal, service resource, storage service resource | Portal to facilitate integration and computing on and across large datasets generated by NHGRI programs, as well as initiatives funded by National Institutes of Health or by other agencies that support human genomics research. Resource for genomic scientific community, that leverages cloud based infrastructure for democratizing genomic data access, sharing and computing across large genomic, and genomic related data sets. Component of federated data ecosystem, and is expected to collaborate and integrate with other genomic data resources through adoption of FAIR (Findable, Accessible, Interoperable, Reusable) principles, as their specifications emerge from scientific community. Will provide collaborative environment, where datasets and analysis workflows can be shared within consortium and be prepared for public release to broad scientific community through AnVIL user interfaces. | Dataset, NHGRI, program, NIH, initiative, funded, human, genomic, data, access, sharing, FAIR, analysis, workflow |
is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases |
NIH | Restricted | https://www.genome.gov/Funded-Programs-Projects/Computational-Genomics-and-Data-Science-Program/Genomic-Analysis-Visualization-Informatics-Lab-space-AnVIL | SCR_017469 | Visualization, and Informatics Lab-space, AnVIL, Analysis Visualization and Informatics Lab-space, Analysis | 2026-09-03 04:54:29 | 31 | ||||||
|
Hemodialysis Pilot Studies Consortium Resource Report Resource Website |
Hemodialysis Pilot Studies Consortium (RRID:SCR_017468) | HDPSC | consortium, data or information resource, organization portal, portal | Consortium to design and conduct pilot and feasibility studies of novel therapies to reduce morbidity and mortality for patients treated with maintenance hemodialysis. Data Coordinating Center (DCC) for consortium provides scientific expertise and operational support for pilot studies that will be conducted at HDPSC Participating Clinical Centers. Data Coordinating Center for Hemodialysis Pilot Studies Consortium. | Novel, therapy, reduce, morbidity, patient, maintenance, hemodialysis, data, coordinating, center | has parent organization: University of Pennsylvania Perelman School of Medicine; Pennsylvania; USA | NIDDK ; NIH |
SCR_017468 | 2026-09-03 04:54:35 | 0 | |||||||||
|
PatchDock Resource Report Resource Website 100+ mentions |
PatchDock (RRID:SCR_017589) | data access protocol, simulation software, software application, software resource, web service | Web server for molecular docking. Performs structure prediction of protein–protein and protein–small molecule complexes. Molecular docking algorithm based on shape complementarity principles. | Molecular, docking, structure, prediction, protein, molecule, shape, complex, bio.tools |
is listed by: Debian is listed by: bio.tools |
Hermann Minkowski-Minerva Center for Geometry at Tel Aviv University ; Israel Science Foundation ; Israeli Ministry of Science ; National Cancer Institute ; NIH |
PMID:15980490 | Free, Freely available | biotools:patchdock | https://bio.tools/patchdock | SCR_017589 | 2026-09-03 04:54:33 | 104 | ||||||
|
Rayyan QCRI Resource Report Resource Website 100+ mentions |
Rayyan QCRI (RRID:SCR_017584) | mobile app, software application, software resource, web application | Software tool for screening papers for systematic reviews. Web and mobile app to help to expedite initial screening of abstracts and titles using process of semi automation while incorporating high level of usability. | Screening, paper, systematic, review, abstract, title, process, semi, automation | DOI:10.1186/s13643-016-0384-4 | SCR_017584 | 2026-09-03 04:54:36 | 109 | |||||||||||
|
LAN toolbox Resource Report Resource Website 1+ mentions |
LAN toolbox (RRID:SCR_017629) | LANtoolbox | 1d time-series analysis software, data analysis software, data processing software, software application, software resource, software toolkit, time-series analysis software | Software toolbox for neuroscientist data (EEG and reaction time for time being). Used to create shared language among different algorithms and softwares in this field (e.g. Fieldtrip, Eeglab, Chronux, Brainstorm, etc), in order to facilitate implementation of experimental analysis by users. Code and scripts for EEG analysis for MATLAB. | Neuroscientist, data, EEG, experimental, analysis, code, script | is related to: MATLAB | Free, Available for download, Freely available | SCR_017629 | Laboratory of Analysis in Neurosciences Toolbox, EEG Toolbox | 2026-09-03 04:54:45 | 2 | ||||||||
|
Italian Twin Registry Resource Report Resource Website |
Italian Twin Registry (RRID:SCR_017476) | data or information resource, portal, topical portal | Portal with information about twins in Italy. | Twins, Italy, data, registry | Free, Freely available | SCR_017476 | National Register of Twins | 2026-09-03 04:54:38 | 0 | ||||||||||
|
HED tags Resource Report Resource Website 1+ mentions |
HED tags (RRID:SCR_017630) | HED tags | standard specification, data or information resource, narrative resource | Strategy guide for HED Annotation. Framework for systematically describing laboratory and real world events.HED tags are comma separated path strings. Organized in forest of groups with roots Event, Item, Sensory presentation, Attribute, Action, Participant, Experiment context, and Paradigm. Used for preparing brain imaging data for automated analysis and meta analysis. Applied to brain imaging EEG, MEG, fNIRS, multimodal mobile brain or body imaging, ECG, EMG, GSR, or behavioral data. Part of Brain Imaging Data Structure standard for brain imaging. | Data, structure, standard, EEG, brain, imaging, comma, separated, path, string, analysis, MEG, fNIRS, multimodal, ECG, EMG, GSR, behavioral |
is related to: Brain Imaging Data Structure (BIDs) has parent organization: University of California at San Diego; California; USA was submitted by: Resource Identification Portal |
NIMH R01 MH084819; NINDS R01 NS047293; CaN CTA program of U.S Army Research Laboratory |
PMID:27799907 | Free, Freely available | SCR_017630 | Hierarchical Event Descriptors tags | 2026-09-03 04:54:38 | 2 | ||||||
|
Macquarie University; Sydney; Australia Resource Report Resource Website 1+ mentions |
Macquarie University; Sydney; Australia (RRID:SCR_017596) | data or information resource, portal, topical portal | Public research university based in Sydney, Australia, in suburb of Macquarie Park. Founded in 1964 by New South Wales Government, it was third university to be established in metropolitan area of Sydney. | SCR_017596 | 2026-09-03 04:54:43 | 8 | |||||||||||||
|
mBT: mBrainTrain Smarting PRO 32 Resource Report Resource Website 1+ mentions |
mBT: mBrainTrain Smarting PRO 32 (RRID:SCR_017634) | instrument resource | 24 channel mobile electroencephalographic recording system. Supports synchronization with other sensors and simultaneous multi amplifier streaming via labstreaming layer. Wearable device that features motion sensors so body and head movements can be detected. | EEG, electroencephalographic, recording, system, motion, sensor, body, head, movement, detect | Restricted | SCR_017634 | 2026-09-03 04:54:42 | 1 | |||||||||||
|
BioAssay Express Resource Report Resource Website 1+ mentions |
BioAssay Express (RRID:SCR_017594) | data access protocol, service resource, software resource, web service | Web based tool for annotating bioassay protocols using semantic web terms. Enables searching, sorting, clustering and analyzing of assays without needing to read through original text. Exploits Common Assay Template based on underlying vocabularies and semantic standards from BioAssay Ontology, Drug Target Ontology, Cell Line Ontology and others. Users can identify similar assays and examine similarity of assays between and within organizations. | Annotating, bioassay, protocol, semantic, web, term, ontology | is listed by: OMICtools | NCATS R44 TR000185 | DOI:10.7717/peerj-cs.61 | Free, Freely available | https://github.com/cdd/bioassay-template | SCR_017594 | 2026-09-03 04:54:33 | 1 | |||||||
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Data Information System - DAISY Resource Report Resource Website 1+ mentions |
Data Information System - DAISY (RRID:SCR_017472) | DAISY | software resource, web application | Open source web application that allows biomedical research institutions to map their data and data flows in accordance with GDPR's accountability requirement. | Map, data, flow, GDPR | Free, Available for download, Freely available | https://github.com/elixir-luxembourg/daisy | SCR_017472 | DAta Information SYstem | 2026-09-03 04:54:25 | 2 | ||||||||
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Biotite Resource Report Resource Website 1+ mentions |
Biotite (RRID:SCR_017593) | data analysis software, data processing software, data visualization software, service resource, software application, software resource, software toolkit | Software Python package bundling popular tasks in computational molecular biology, from sequence analysis to structural bioinformatics. Comprehensive library for computational molecular biology. Package features sequence and structure data analysis and editing functionality, support for common sequence and structure file formats, visualization capabilities, interfaces to external software (MSA software, BLAST, DSSP). Operating system(s): Windows, OS X, Linux. | works with: Entrez | DOI:10.1186/s12859-018-2367-z | Free, Available for download, Freely available | SCR_017593 | 2026-09-03 04:54:36 | 5 | ||||||||||
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Mediation Analysis of Causality under Confounding Resource Report Resource Website |
Mediation Analysis of Causality under Confounding (RRID:SCR_017442) | MACC | data analysis software, data processing software, software application, software resource | Software package to perform causal mediation analysis under confounding or correlated errors. Includes single level mediation model, two level and three level mediation model for data with hierarchical structures. Under two or three level mediation model, correlation parameter is identifiable and is estimated based on hierarchical likelihood, marginal likelihood or two stage method. | Casual, mediation, analysis, confounding, correlated, error, data, hierarchical, structure, parameter, BRAIN Initiative |
is recommended by: BRAIN Initiative is listed by: CRAN |
NIBIB EB022911 | Free, Available for downloads, Freely available | SCR_017442 | Mediation Analysis of Causality under Confounding, macc | 2026-09-03 04:54:28 | 0 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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