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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX) Resource Report Resource Website |
Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX) (RRID:SCR_014178) | VERTEX | simulation software, software resource, software application | A Matlab tool for simulating extracellular potential recordings in spiking neural network (SNN) models. VERTEX is designed to facilitate the simulation of extracellular potentials generated by activity in SNNs; in particular, spatially-organised networks containing thousands or hundreds of thousands of neurons. It has a limited scope but has a simpler user interface so that a simulation can be specified simply by setting some parameters and run using a few function calls. | simulation software, matlab, extracellular potential, spiking neural network model, snn model |
uses: MATLAB is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Newcastle University; Newcastle upon Tyne; United Kingdom |
PMID:24863422 | Available to the research community | SCR_014178 | Virtual Electrode Recording Tool for EXtracellular potentials | 2026-08-18 09:43:44 | 0 | |||||||
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LSM Image Examiner Resource Report Resource Website 1000+ mentions Rating or validation data |
LSM Image Examiner (RRID:SCR_014344) | data management software, software resource, software application | Software used to compile images obtained from the Zeiss LSM 510 confocal microscope. The browser can be used for general image archiving and handling and interactive measurement in labs and workgroups. Features include orthogonal sectioning, 3D cut function, 3D view with calculation of single projections, and interactive measurement functions in the overlay dialog, such as scale bar, distance, and area. | data management software, image archive, image management, interactive measurement | is listed by: SoftCite | Available for download | http://www.zeiss.com/microscopy/en_us/website/downloads/lsm-image-browser.html http://lsm-image-examiner.software.informer.com | SCR_014344 | LSM Image Browser | 2026-08-18 09:44:08 | 1520 | ||||||||
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SCORE Resource Report Resource Website 100+ mentions |
SCORE (RRID:SCR_014165) | data or information resource, experimental protocol, narrative resource | A collection of methods for comparing the performance of different image algorithms. These methods generate quantitative scores that measure divergences to a standard. | experiment protocol, method, different image algorithm, quantitative score |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Utah; Utah; USA |
NLM HHSN276201000584P; NIBIB 1R41 EB011796 |
SCR_014165 | 2026-08-18 09:43:44 | 481 | ||||||||||
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FlexField Software Resource Report Resource Website 1+ mentions |
FlexField Software (RRID:SCR_014420) | standalone software, software resource, systems interoperability software, software application | Transformation software designed to help model and change Oracle account charts. This can be used to reorganize Oracle accounts due to events such as mergers, acquisitions, regulatory requirements and the need for more ranges when the data outgrows the range of the current chart of accounts. FlexField transforms an existing accounting flexfield segment structure, values, code combinations, and CCIDs according to user mappings, and applies the new code combinations and CCIDs. It propagates the change throughout an existing E-Business Suite data, everywhere the accounting flexfield is used. It removes the old code combinations and CCIDs, and aligns the new Chart of Accounts (COA) so that all balances belonging to a single CCID are summarized into a single line. | software, oracle, ccid, account chart, segment structure, accounting, chart of accounts | Commercial product, License fee | SCR_014420 | 2026-08-18 09:43:47 | 2 | |||||||||||
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Rexplore Resource Report Resource Website |
Rexplore (RRID:SCR_014364) | web application, text-mining software, software resource, software application | An application which provides an environment to explore and organize scholarly data. Rexplore leverages solutions in large-scale data mining, semantic technologies and visual analytics, which allows users to detect and follow research trends, identify and map relationships between authors, perform expert searches, and analyze research performance. | semantic publishing, analytics, semantic web, machine learning, data mining | has parent organization: Open University; Milton Keynes; United Kingdom | Not publicly available, Contact Enrico Motta | SCR_014364 | 2026-08-18 09:43:46 | 0 | ||||||||||
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Desmond Resource Report Resource Website 500+ mentions |
Desmond (RRID:SCR_014575) | simulation software, software resource, software application | Software designed to perform high-speed molecular dynamic simulations of biological systems on conventional commodity clusters, supercomputers and GPUs. This code uses novel parallel algorithms and numerical techniques to achieve high performance and accuracy on platforms with a large number of processors. It can be used with a single computer. | simulation, supercomputer, commodity cluster, gpu, parallel algorithm, biological system, parallel algorithms, computer, processor | is used by: CHARMM-GUI | Open source, Free for non-commercial use, Commercial entities must contact Schrodinger LLC | SCR_014575 | 2026-08-18 09:43:49 | 946 | ||||||||||
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ELIXIR Tools and Data Services Registry Resource Report Resource Website 10+ mentions |
ELIXIR Tools and Data Services Registry (RRID:SCR_014556) | data or information resource, portal, topical portal | Elixir Interoperability Platform to help people and machines to discover, access, integrate and analyse biological data. Encourages life science community to adopt standardized file formats, metadata, vocabularies and identifiers and works internationally to achieve its goals. Bioinformatics resource registry that provides scientific and technical information about analytical tools and data services for bioinformatics. Gateway to databases and tools for life science data analysis.Provides comprehensive and up-to-date catalogue of resources that are interactive and downloadable, and that offer programmatic access. The registry also allows the community to upload their own resources to the registry following a simple log in procedure. | bioinformatics, data service registry, tool registry, resource registry, registry |
lists: gProfiler2 lists: Galactic Circos lists: bio.tools is affiliated with: bio.tools is related to: FAIRsharing is related to: Laniakea |
Free, Freely available | SCR_014556 | European Infrastructure for Biological Information Tools | 2026-08-18 09:43:48 | 21 | |||||||||
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NeuroRD Resource Report Resource Website 10+ mentions |
NeuroRD (RRID:SCR_014769) | simulation software, software resource, software application | Stochastic reaction-diffusion simulator in Java which is used for simulating neuronal signaling pathways. | simulation software, simulator, java, neuronal signaling pathway, neuron | HFSP ; NIMH K21-MH01141; NSF IBN 0077509; CRCNS program R01 AA16022; CRCNS program AA18066 |
Available for download | https://github.com/neurord/stochdiff/releases | SCR_014769 | 2026-08-18 09:44:12 | 13 | |||||||||
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COMSOL Multiphysics Resource Report Resource Website 50+ mentions |
COMSOL Multiphysics (RRID:SCR_014767) | simulation software, software resource, software application | General-purpose software platform for modeling and simulating physics-based problems which accounts for coupled or multiphysics phenomena. The platform includes a set of core physics interfaces for common physics application areas such as structural analysis, laminar flow, pressure acoustics, transport of diluted species, electrostatics, electric currents, heat transfer, and Joule heating. | simulation software, software platform, physics, problem solver | is listed by: SoftCite | Commercially available | SCR_014767 | 2026-08-18 09:44:05 | 51 | ||||||||||
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PCSIM Resource Report Resource Website 1+ mentions |
PCSIM (RRID:SCR_014770) | simulation software, software resource, software application | Software tool for simulating heterogeneous networks composed of different model neurons and synapses. It is intended to simulate networks containing up to millions of neurons and on the order of billions of synapses by distributing the network over different nodes of a computing cluster by using MPI. | simulation software, simulator, heterogenous network, model, neuron, synapse | is related to: CSIM | DOI:10.3389/neuro.11.011.2009 | Available for download | SCR_014770 | Parallel neural Circuit SIMulator, Parallel Neural Circuit Simulator (PCSIM), Parallel Neural Circuit Simulator | 2026-08-18 09:43:51 | 4 | ||||||||
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Mvaspike Resource Report Resource Website |
Mvaspike (RRID:SCR_014760) | simulation software, software resource, software application | Tool for modeling and simulating large, complex biological neural networks, particularly pulse-coupled, spiking neural networks. Its main features include modular or hierarchical modeling strategy of networks, phase-coded neurons, event-driven simulation, and integration of standard file formats. | simulation software, neural network, biological neural network, spiking neural network, event based modeling, event based simulation | SCR_014760 | 2026-08-18 09:44:05 | 0 | ||||||||||||
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IonChannelLab Resource Report Resource Website 1+ mentions |
IonChannelLab (RRID:SCR_014762) | simulation software, software resource, software application | Software for kinetic modeling of ion channels which operates on Windows XP or Windows Vista. | simulation software, kinetic modeling, ion channel, electrophysiology | CONACyT Mexico 79897; CONACyT Mexico 105457; NINDS R01 NS032337 |
Available for download | SCR_014762 | 2026-08-18 09:43:51 | 5 | ||||||||||
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libRoadRunner Resource Report Resource Website 10+ mentions |
libRoadRunner (RRID:SCR_014763) | simulation software, software resource, software application | Simulation engine for systems and synthetic biology to be used with other software applications. It retains the original functionality of RoadRunner but has changes in performance, back-end design, event handling, new C++ API, and stochastic simulation support. | simulation engine, simulation software, road runner, roadrunner, systems biology, synthetic biology |
is listed by: Debian is listed by: OMICtools |
NIGMS GM081070 | DOI:10.1093/bioinformatics/btv363 | Open source, Available for download | OMICS_09368 | https://sources.debian.org/src/libroadrunner-dev/ | SCR_014763 | 2026-08-18 09:44:05 | 11 | ||||||
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Drososhare Resource Report Resource Website 1+ mentions |
Drososhare (RRID:SCR_014976) | material resource, biomaterial supply resource, organism supplier | Website resource for researchers to order and send Drosophilia specimens to each other. This community-driven supplier also works with the FlyBase Drosophilia database to search for synonyms for fly species. | community driven, organism supplier, community building portal, drosophila, fly, specimen | uses: FlyBase | Available to the research community | SCR_014976 | Drososhare GmbH | 2026-08-18 09:43:54 | 1 | |||||||||
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Northern Spalting - Applied Mycology Lab Resource Report Resource Website |
Northern Spalting - Applied Mycology Lab (RRID:SCR_014945) | material resource, biomaterial supply resource, organism supplier | Supplier of non-toxic, pure-culture fungi through Oregon State University which are kept active in the lab. All organisms arrive in an aggressive, pigmenting state. It's website also features scientific information on spalting, DIY guides, lists of upcoming spalting events, and a menagerie of other spalting resources. | spalting, wood coloring, fungi, pigmenting fungi, aggressive fungi, non toxic fungi, pure culture fungi, mushroom, malt agar | has parent organization: Oregon State University; Oregon; USA | Available to the scientific community | SCR_014945 | Applied Mycology Lab, Northern Spalting | 2026-08-18 09:44:07 | 0 | |||||||||
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Tool for Tumor Progression Resource Report Resource Website 1+ mentions |
Tool for Tumor Progression (RRID:SCR_014700) | TTP | simulation software, software resource, software application | Software used to simulate tumor progression in various stages of growth in order to study the process' dynamics. The input can be fitness landscape, mutation rate, and cell division time. The output is growth dynamics and other relevant statistics, such as expected tumor detection time and expected appearance time of surviving mutants. The tool is implemented in Java and runs on all operating systems which run a Java Virtual Machine (JVM) of version 1.7 or above. | tumor, tumor progression, cancer, simulation, simulation software, tumor dynamics, tumor growth | Cancer | Available for download, Necessary libraries are included in the file | SCR_014700 | Tool for Tumor Progression (TTP) | 2026-08-18 09:44:11 | 1 | ||||||||
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Aloha Medicinals Resource Report Resource Website |
Aloha Medicinals (RRID:SCR_014943) | material resource, biomaterial supply resource, organism supplier | Producer and supplier of organic medicinal mushrooms and medicinal mushroom products. Its product line includes raw materials and private label products for pharmaceutical and nutraceutical use, as well as its own branded line of "Condition Specific" dietary supplements available to the public. | mushroom, nutritional supplement, mycology, pharmaceutical use, nutraceutical use, medicinal mushroom, mushroom supplement | Commercially available | SCR_014943 | Aloha Medicinals Inc, Aloha Medicinals Culture Bank | 2026-08-18 09:44:14 | 0 | ||||||||||
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Archer Farms Resource Report Resource Website 10+ mentions |
Archer Farms (RRID:SCR_014948) | material resource, biomaterial supply resource, organism supplier | Producer and supplier of swine and sheep for research purposes. Archer Farms delivers its specimens directly to research facilities throughout the East Coast. | swine supplier, sheep supplier, model mammal organism | Commercially available, Available for purchase | SCR_014948 | Archer Farms Inc. | 2026-08-18 09:44:08 | 22 | ||||||||||
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Aquatic Research Organisms Resource Report Resource Website 1+ mentions |
Aquatic Research Organisms (RRID:SCR_014946) | ARO | material resource, biomaterial supply resource, organism supplier | Supplier of laboratory-reared and field-collected freshwater, marine, and estuarine organisms. Invertebrates and vertebrates are available, and seasonal and unlisted organisms can be requested. Its test organisms are available for environmental and biomedical research. | marine organism, freshwater organism, marine invertebrate, freshwater invertebrate, marine vertebrate, freshwater vertebrate, seasonal organism | Commercially available, Available to the scientific community | SCR_014946 | Aquatic Research Organisms Inc., Aquatic Research Organisms (ARO), Aquatic Research Organisms Inc | 2026-08-18 09:44:14 | 1 | |||||||||
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Bio Breeders Resource Report Resource Website |
Bio Breeders (RRID:SCR_014951) | material resource, biomaterial supply resource, organism supplier | Developer of specialized and appropriate hamster models for research on human diseases. These specialized hamsters have features similar to those seen in certain human diseases. Bio Breeders provides these specialized hamsters to the biomedical community worldwide. | hamster model, mice colony, myopathic hamster, animal test subject, rodent, hamster | Commercially available, Available to the research community | SCR_014951 | Bio Breeders Inc., Bio Breeders Inc | 2026-08-18 09:44:08 | 0 |
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