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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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poke device arduino Resource Report Resource Website |
poke device arduino (RRID:SCR_021608) | software resource | Software tool as script to test if IR led, IR photodiode, arduino and 3D printed nose poke device work properly. Part of Nose Poke Device system. | OpenBehavior, nose poke device, microcontroller code, electronic parts conrol |
is listed by: OpenBehavior is related to: Nose Poke Device |
Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/nose-poke-device/ | SCR_021608 | poke_device_arduino | 2026-09-05 06:29:43 | 0 | ||||||||
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Hybrid-drive combining Optogenetics, Pharmacology, and Electrophysiology Resource Report Resource Website |
Hybrid-drive combining Optogenetics, Pharmacology, and Electrophysiology (RRID:SCR_021606) | software resource | Softwre tool as part of Hybrid-drive combining Optogenetics, Pharmacology, and Electrophysiology project for brain implant. | Software resource, OpenBehavior |
is listed by: OpenBehavior is related to: Hybrid-drive combining Optogenetics, Pharmacology, and Electrophysiology project |
DOI:10.3389/fncir.2018.00041 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/hope/ | SCR_021606 | hope | 2026-09-05 06:29:43 | 0 | |||||||
|
CIRIquant Resource Report Resource Website 1+ mentions |
CIRIquant (RRID:SCR_021661) | data analysis software, data processing software, software application, software resource, software toolkit | Software Python package for accurate circRNA quantification and differential expression analysis. Comprehensive analysis pipeline for circRNA detection and quantification in RNA-Seq data. Accurate quantification of circular RNAs identifies extensive circular isoform switching events. | circRNA quantification, differential expression analysis, RNA-Seq data, circular RNA, circular isoform switching events | National Natural Science Foundation of China | DOI:10.1038/s41467-019-13840-9 | Free, Available for download, Freely available | https://sourceforge.net/projects/ciri/files/, https://ciri-cookbook.readthedocs.io/en/latest/CIRIquant_0_home.html# | SCR_021661 | 2026-09-05 06:29:44 | 4 | ||||||||
|
Single Cell Doublet Scoring Resource Report Resource Website 1+ mentions |
Single Cell Doublet Scoring (RRID:SCR_021541) | SCDS | data analysis software, data processing software, software application, software resource | Software R package for computational doublet annotation of single cell RNA sequencing data. Software tool for in silico identification of doublets in scRNA-seq data. | Doublet annotation, single cell RNA sequencing data, in silico doublet annotation, single cell RNA sequencing data | Free, Available for download, Freely available | SCR_021541 | 2026-09-05 06:29:41 | 9 | ||||||||||
|
NanoString: GeoMx Digital Spatial Profiler Resource Report Resource Website 10+ mentions |
NanoString: GeoMx Digital Spatial Profiler (RRID:SCR_021660) | GeoMx DSP | instrument resource | Integrated commercial system comprising hardware, software and nCounter chemistry that enables simultaneous, highly multiplex spatial profiling of proteins or RNA in FFPE tissues. DSP platform quantifies abundance of protein or RNA by counting unique indexing oligonucleotides assigned to each target of interest. Used to rapidly and quantitatively assess biological implications of heterogeneity within tissue samples. | Spatial profiling, proteins spatial profiling, RNA spatial profiling, NanoString, counting unique indexing oligonucleotides, tissue heterogeneity, Digital Spatial Profiler, instrument, equipment, USEDit | is listed by: USEDit | PMID:32393914 | Restricted | SCR_021660 | GeoMx Digital Spatial Profiler | 2026-09-05 06:29:44 | 34 | |||||||
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Hamamatsu: NanoZoomer 2.0-HT Resource Report Resource Website 10+ mentions |
Hamamatsu: NanoZoomer 2.0-HT (RRID:SCR_021658) | instrument resource | High speed, high resolution digital scanner with network features. User friendly full slide scanner designed to process up to 210 slides automatically. | Hamamatsu, digital scanner, full slide scanner, 210 slides process, automatic scanner, instrument, equipment, USEDit | is listed by: USEDit | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_021658.pdf | Model_Number_NanoZoomer_2.0-HT | SCR_021658 | Hamamatsu NanoZoomer 2.0-HT System | 2026-09-05 06:29:44 | 26 | ||||||||
|
ontquery Resource Report Resource Website 1+ mentions |
ontquery (RRID:SCR_021659) | software resource | Software tool as framework querying ontology terms within SciCrunch and SciCrunch SciGraph endpoints. | Querying ontology terms, ontology terms, SciCrunch SciGraph endpoints, querying ontology | Free | https://github.com/tgbugs/ontquery | SCR_021659 | 2026-09-05 06:29:44 | 1 | ||||||||||
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Federal University of Santa Catarina; Santa Catarina; Brazil Resource Report Resource Website 1+ mentions |
Federal University of Santa Catarina; Santa Catarina; Brazil (RRID:SCR_021535) | data or information resource, portal, topical portal | Public university in Florianópolis, the capital city of Santa Catarina in southern Brazil. | University | is parent organization of: EthoWatcher project | SCR_021535 | 2026-09-05 06:29:41 | 3 | |||||||||||
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McKinley: Cellometer Auto T4 Resource Report Resource Website 1+ mentions |
McKinley: Cellometer Auto T4 (RRID:SCR_021656) | instrument resource | System includes automated cell counter for trypan blue viability for cell lines and bright field imaging and pattern recognition software to quickly and accurately identify and count individual cells. Cell count, concentration, diameter, and % viability are automatically calculated and reported. | Automated cell counter, trypan blue cell viability, bright field imaging, pattern recognition, count individual cells, cell concentration count, cell diameter count, instrument, equipment, USEDit | is listed by: USEDit | Commercially available | Model_Number_Auto_T4 | SCR_021656 | Auto T4, Nexcellom Bioscience Cellometer Auto T4 Bright Field Cell Counter, Cellometer Auto T4 Bright Field Cell Counter | 2026-09-05 06:29:44 | 3 | ||||||||
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Calcium Imaging data Analysis Resource Report Resource Website 10+ mentions |
Calcium Imaging data Analysis (RRID:SCR_021533) | CaImAn | data processing software, image analysis software, software application, software library, software resource, software toolkit | Open source software tool for scalable calcium imaging data analysis. Used for large scale calcium imaging analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization. | calcium imaging analysis, movie handling, motion correction, source extraction, spike deconvolution, result visualization, OpenBehavior |
is listed by: OpenBehavior is related to: Calcium Imaging data Analysis project |
DOI:10.7554/elife.38173 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/caiman/ | SCR_021533 | 2026-09-05 06:29:41 | 44 | |||||||
|
MRI-stereoscope project Resource Report Resource Website 1+ mentions |
MRI-stereoscope project (RRID:SCR_021655) | data or information resource, instrument resource, portal, project portal | Project provides miniature mirror stereoscope system for MRI-scanner. System takes advantage of commonly used display equipment, MRI head coil, and display screen. Miniature Wheatstone stereoscope is used for human neuroimaging. | Miniature Wheatstone stereoscope, human neuroimaging, stereoscope system, MRI-scanner, Istrument, OpenBehavior | is listed by: OpenBehavior | Free, Freely available | SCR_021655 | 2026-09-05 06:29:44 | 1 | ||||||||||
|
Spike Forest Resource Report Resource Website 1+ mentions |
Spike Forest (RRID:SCR_021532) | data analysis software, data processing software, software application, software resource | Open source and reproducible software suite that benchmarks performance of automated spike sorting algorithms across extensive, curated database of ground truth electrophysiological recordings, displaying results interactively on continuously updating website. | Validating automated neural spike sorters, electrophysiological recordings, spike sorting codes, spike sorting analysis, OpenBehavior |
is listed by: OpenBehavior is related to: Spike Forest project |
DOI:10.7554/elife.55167 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/spikeforest/ | SCR_021532 | SpikeForest, SpikeForest v2 | 2026-09-05 06:29:41 | 1 | |||||||
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OpenFeeder Resource Report Resource Website |
OpenFeeder (RRID:SCR_021552) | data or information resource, instrument resource, portal, project portal | Project related to studying reward and feeding behavior. Provides open source automatic feeding system that can be customized for food types from seeds to pellets.System integrates plexiglass tubes, Arduino Uno, motor driver, and piezo sensor to reliably deliver accurate amounts of food, and can also be built using 3D printed parts. | Instrument, automatic feeding system, customized for food types, plexiglass tubes, Arduino Uno, motor driver, piezo sensor, deliver accurate amounts of food, 3D printed parts, OpenBehavior | is listed by: OpenBehavior | DOI:10.1016/j.ohx.2016.09.001 | Free, Freely available | SCR_021552 | 2026-09-05 06:29:42 | 0 | |||||||||
|
ToneBox Resource Report Resource Website |
ToneBox (RRID:SCR_021548) | data or information resource, instrument resource, portal, project portal | Project related to auditory behavioral task data collection.Provided high throughput operant conditioning in mouse homecage system was developed by University of Maryland,College Park, scientists.Automated system for training up to hundreds of mice in auditory behavioral task features custom Matlab GUI running on desktop which connects to Raspberry Pi to administer auditory stimuli from USB soundcard and collects auditory data as well as licking data from water spout with commercially available capacitive sensors. Parts list and build instructions are readily available from paper and associated GitHub repository. | Instrument, auditory behavioral task, automated system, training mice, auditory behavioral task, OpenBehavior |
is listed by: OpenBehavior has parent organization: University of Maryland; Maryland; USA |
DOI:10.1523/eneuro.0121-19.2019 | Free, Freely available | SCR_021548 | 2026-09-05 06:29:41 | 0 | |||||||||
|
STARsolo Resource Report Resource Website 100+ mentions |
STARsolo (RRID:SCR_021542) | data analysis software, data analytics software, data processing software, software application, software resource | Software tool for accurate, fast and versatile mapping/quantification of single cell and single nucleus RNA-seq data. Used for mapping, demultiplexing and quantification for single cell RNA-seq. Comprehensive turnkey solution for quantifying gene expression in single-cell/nucleus RNA-seq data, built into RNA-seq aligner STAR. | mapping, quantification, single cell, single nucleus, RNA-seq data, quantifying gene expression | uses: STAR | DOI:10.1101/2021.05.05.442755 | Free, Available for download, Freely available | SCR_021542 | 2026-09-05 06:29:41 | 127 | |||||||||
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CIRCexplorer2 Resource Report Resource Website 10+ mentions |
CIRCexplorer2 (RRID:SCR_021664) | data analysis software, data processing software, software application, software resource | Software package for comprehensive and integrative circular RNA analysis. It is the successor of CIRCexplorer with plenty of new features to facilitate circular RNA identification and characterization. Used to annotate circRNAs, de novo assemble novel circular RNA transcripts and chracterize various of alternative (back-)splicing events of circular RNAs. | Decipher alternative back splicing, decifer circRNAs splicing pattern, circular RNA analysis, annotate circRNAs | Ministry of Science and Technology of China ; National Natural Science Foundation of China |
PMID:27365365 PMID:30539552 |
Free, Available for download, Freely available | SCR_021664 | 2026-09-05 06:29:44 | 49 | |||||||||
|
Ratcave Resource Report Resource Website |
Ratcave (RRID:SCR_021599) | software library, software resource, software toolkit | Software 3D graphics python package for cognitive psychology experiments. Open source, cross platform Python library that adds 3D stimulus support to all OpenGL-based 2D Python stimulus libraries. These libraries include VisionEgg, Psychopy, Pyglet, and PyGam. | Stimuli to subjects, response record, Python, 3D graphics library, 3D stimulus support, OpenBehavior |
is listed by: OpenBehavior is related to: Ratcave project |
DOI:10.3758/s13428-019-01245-x | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/ratcave/ | SCR_021599 | 2026-09-05 06:29:43 | 0 | ||||||||
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SourceMD Resource Report Resource Website |
SourceMD (RRID:SCR_021633) | data access protocol, data or information resource, software resource, web service | Web tool as prototype service to automatically generate Wikidata items using metadata from scholarly publications. Citation lookup tool in Wikipedia platform. Takes persistent identifier for scholarly article and processes it by importing bibliographic metadata into Wikidata items. In August 2018, it was merged with ORCIDator into single tool that allows for fully automated batch processing based on ISBN-13, DOI, ORCID iD, PubMed ID, PMCID identifiers. | Generate Wikidata items, scholarly publications metadata, citation lookup tool, Wikipedia platform, importing bibliographic metadata | is related to: Wikidata | Free, Freely available | https://www.wikidata.org/wiki/Wikidata:SourceMD, https://sourcemd.toolforge.org/, | SCR_021633 | Source M.D., Source Metadata Tool | 2026-09-05 06:29:43 | 0 | ||||||||
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MNE Scan Resource Report Resource Website 1+ mentions |
MNE Scan (RRID:SCR_021530) | data acquisition software, data processing software, software application, software resource | Software tool for real time processing of electrophysiological data. | Electrophysiological data processing, medical regulatory requirements, build standalone applications, MEG data acquisition, MEG data processing, EEG data acquisition, MEG data acquisition, OpenBehavior |
is listed by: OpenBehavior is related to: MNE Scan project |
DOI:10.1016/j.jneumeth.2018.03.020 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/mne-scan/ | SCR_021530 | 2026-09-05 06:29:41 | 1 | ||||||||
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NetMHC Resource Report Resource Website 10+ mentions |
NetMHC (RRID:SCR_021651) | analysis service resource, data access protocol, production service resource, service resource, software resource, web service | Web tool for binding prediction of peptides to MHC class I molecules. The newest version NetMHC- 4.0 is used for prediction of peptide MHC class I binding affinity using gapped sequence alignment that allows insertions and deletions in alignment. | Gapped sequence alignment, peptide-MHC, artificial neural networks, MHC class I system, histocompatibility complex, peptide binding, binding prediction | PMID:18463140 PMID:26515819 |
Free, Freely available | SCR_021651 | NetMHC- 3.0, NetMHC- 2.1, NetMHC- 2.0, NetMHC- 1.0, NetMHC- 3.2, NetMHC- 4.0, NetMHC-3.4 | 2026-09-05 06:29:44 | 39 |
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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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