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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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datasets.datalad.org Resource Report Resource Website 1+ mentions |
datasets.datalad.org (RRID:SCR_019089) | data repository, storage service resource, data or information resource, data set, service resource | DataLad data distribution. Super dataset collating DataLad datasets from various sources including OpenNeuro, CRCNS, etc., to provide unified access to over 200TB of neural data. | Version control system, data distribution, super dataset, DataLad dataset, neural data | is related to: DataLad | NSF 1429999; NSF 1912266; NIBIB P41 EB019936 |
Free, Freely available | https://www.datalad.org/datasets.html | SCR_019089 | 2026-08-15 11:26:02 | 8 | ||||||||
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DeePhage Resource Report Resource Website 1+ mentions |
DeePhage (RRID:SCR_019243) | data processing software, software application, data analysis software, software resource, sequence analysis software | Software tool to distinguish virulent and temperate phage derived sequences in metavirome data with deep learning approach. Used to identify virome sequences as temperate phage derived or virulent phage derived fragments. | Metavirome data, identify virome sequences, derived fragment, distinguish phage derived sequences, temperate phage sequences, virulent phage sequences, deep learning | https://github.com/shufangwu/DeePhage | SCR_019243 | 2026-08-15 11:26:06 | 4 | |||||||||||
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Fruit Fly Brain Observatory Resource Report Resource Website 1+ mentions |
Fruit Fly Brain Observatory (RRID:SCR_019244) | FFBO | topical portal, data repository, data processing software, storage service resource, portal, data or information resource, software application, software resource, service resource | Open source software platform for studying fruit fly brain function, and for investigating fruit fly brain disease models that are highly relevant to mechanisms of human neurological and psychiatric disorders. Collaborative ecosystem for accelerating discovery of functional logic of fruit fly brain. Includes FlyBrainLab and BrainMapsViz. Stores and integrates fruit fly brain research data. Repository of tools and methods to build, emulate and compare fruit fly brain models in health and disease. Open framework for fruit fly brain data processing and model execution. | Fruit fly brain function, neural circuits, fly brain data, brain function data, neuron location, neuron morphology, neuron biophysical properties, genetic data, | human neurological and psychiatric disorders, Epilepsy, Parkinson | Free, Freely available | SCR_019244 | 2026-08-15 11:26:13 | 3 | |||||||||
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HADDOCK Resource Report Resource Website 100+ mentions |
HADDOCK (RRID:SCR_019091) | simulation software, web service, data access protocol, software application, software resource | Software tool as information driven flexible docking approach for modeling of biomolecular complexes.User friendly integrative modeling of biomolecular complexes.HADDOCK v 2.2 offers new features such as support for mixed molecule types, additional experimental restraints and improved protocols, all of this in user friendly interface. | Molecular docking, data driven, biomolecular complex, grid computing, hybrid modeling, protein complex | has parent organization: Utrecht University; Utrecht; Netherlands | PMID:12580598 PMID:26410586 |
Restricted | https://www.bonvinlab.org/software/haddock2.2/, https://wenmr.science.uu.nl/haddock2.4/ | SCR_019091 | HADDOCK2.2, HADDOCK2.4, High Ambiguity Driven protein-protein DOCKing | 2026-08-15 11:26:10 | 168 | |||||||
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PhyloPic Resource Report Resource Website 500+ mentions |
PhyloPic (RRID:SCR_019139) | data repository, storage service resource, web service, data access protocol, data or information resource, software resource, service resource | Silhouette images of animals, plants, and other life forms, available for reuse. Database stores reusable silhouette images and phylogenetic taxonomy of all organisms. Each image is associated with one or more taxonomic names and indicates roughly what ancestral member of each taxon looked like. | Silhouette images, phylogenetic taxonomy, taxonomic name, taxon ancestral member, supertaxa, subtaxa, image related taxa, FASEB list | Free, Freely available | SCR_019139 | 2026-08-15 11:26:04 | 714 | |||||||||||
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ScanNeo Resource Report Resource Website 1+ mentions |
ScanNeo (RRID:SCR_019253) | data processing software, software application, data analysis software, software resource, sequence analysis software | Open software pipeline for analyzing RNA-seq to predict neoepitopes derived from small to large sized indels. Used for identifying indel derived neoantigens using RNA-Seq data. | RNA-Seq, neoepitopes, indel, indel derived neoantigen, RNA-Seq data, neoantigen identification | PMID:30887025 | Free, Available for download, Freely available | SCR_019253 | 2026-08-15 11:26:06 | 4 | ||||||||||
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Interact Resource Report Resource Website 1+ mentions |
Interact (RRID:SCR_019254) | software resource | Software platform for synchronized viewing and analysis of video footage and audio files in observational research by Mangold International GmbH. Qualitative and quantitative video coding software. | Synchronized viewing, analysis, video footage, audio files, observational research, video coding | Restricted | SCR_019254 | 2026-08-15 11:26:13 | 5 | |||||||||||
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BiG-SLiCE Resource Report Resource Website 1+ mentions |
BiG-SLiCE (RRID:SCR_019130) | data processing software, software application, data analysis software, software resource | Software tool to perform large scale clustering analysis of Biosynthetic Gene Cluster data. | Biosynthetic Gene, gene clusters, super linear clustering, clustering data analysis, bio.tools |
is listed by: bio.tools is listed by: Debian |
Netherlands eScience Center Accelerating Scientific Discoveries Grant ; Graduate School for Experimental Plant Sciences Netherlands |
DOI:10.1101/2020.08.17.240838 | Free, Available for download, Freely available | biotools:big_slice | https://bio.tools/big_slice | SCR_019130 | Biosynthetic Gene clusters - Super Linear Clustering Engine | 2026-08-15 11:26:03 | 6 | |||||
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cthist Resource Report Resource Website 1+ mentions |
cthist (RRID:SCR_019229) | software resource | Software tool for mass downloading of historical clinical trial data from ClinicalTrials.gov. | Mass downloading, historical clinical trial data, ClinicalTrials.gov, trial registry number | is related to: ClinicalTrials.gov | Free, Available for download, Freely available | https://github.com/bgcarlisle/cthist | SCR_019229 | 2026-08-15 11:26:12 | 2 | |||||||||
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igraph Resource Report Resource Website 100+ mentions |
igraph (RRID:SCR_019225) | software toolkit, data processing software, software application, data analysis software, network analysis software, network graph visualization software, software resource, data visualization software | Software package for graphs and network analysis. Provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.Can be programmed in R, Python, Mathematica, C/C Plus Plus. | Graphs analysis, network analysis, generating graph function, graph visualization |
is listed by: CRAN is listed by: SoftCite is related to: igraph for R |
Free, Available for download, Freely available | https://igraph.org/, https://github.com/igraph/igraph/releases/tag/0.8.4 | SCR_019225 | igraph 0.8.4, igraph 1.2.6 | 2026-08-15 11:26:05 | 432 | ||||||||
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COVID-19 Data Repository Resource Report Resource Website 1+ mentions |
COVID-19 Data Repository (RRID:SCR_019105) | topical portal, disease-related portal, data repository, storage service resource, portal, data or information resource, service resource | Repository for data examining social, behavioral, public health, and economic impact of novel coronavirus global pandemic. Free self publishing option for any researcher who wants to share data related to COVID-19. Deposits should include all data, annotated program code, command files, and documentation necessary to understand data collection and/or replicate research findings. | COVID-19, impact data, novel coronavirus global pandemic, novel coronavirus, data |
uses: DataCite is related to: OpenICPSR has parent organization: University of Michigan; Ann Arbor; USA |
COVID-19 | Free, Freely available | https://doi.org/10.3886, https://dx.doi.org/10.3886 | SCR_019105 | 2026-08-15 11:26:10 | 1 | ||||||||
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Authentication Reports Resource Report Resource Website |
Authentication Reports (RRID:SCR_019226) | data access protocol, software resource, web service | dkNET service that assists researchers in preparing authentication plans for cell lines or antibodies to comply with NIH Submission Policy when submitting proposal or publication. Automated tool to enable researchers to create customized report based on key biological resources they plan to use. These customized reports provide additional information such as known problems with particular cell line or antibody. | dkNET Authentication Report, preparing cell lines authentication plans, preparing antibodies authentication plans, NIH Submission Policy, proposal submitting, publication submitting, customized report creation | Free, Freely available | SCR_019226 | 2026-08-15 11:26:12 | 0 | |||||||||||
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Parliament2 Resource Report Resource Website 1+ mentions |
Parliament2 (RRID:SCR_019187) | software toolkit, data processing software, software application, data analysis software, software resource | Software tool to identify structural variants in given sample relative to reference genome. Runs combination of tools to generate structural variant calls on whole genome sequencing data. | structural variants identification, reference genome, structural variant calls generation, whole genome sequencing data, sequencing data, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Available for download, Freely available | biotools:parliament2 | https://bio.tools/parliament2 | SCR_019187 | 2026-08-15 11:26:11 | 5 | ||||||||
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NEMAR Resource Report Resource Website 1+ mentions |
NEMAR (RRID:SCR_019100) | data or information resource, portal, topical portal | Portal for human electrophysiological data, supports, sharing and in depth analysis of identified human neuroelectromagnetic brain data including scalp EEG, its magnetic counterpart, MEG, and, intracranial iEEG and ECoG. Open access EEG and MEG data archives, analysis, and visualization. Neuroelectromagnetic data, tools, and compute resource. | Human electrophysiological data, neuroelectromagnetic data, neuroelectromagnetic tools, data archives, data analysis, data visualization, EEG data, MEG data, iEEG data, ECoG data, brain data | is affiliated with: OpenNeuro | NIH | Free, Freely available | SCR_019100 | NEuroelectroMagnetic data Archive and tools Resource | 2026-08-15 11:26:10 | 9 | ||||||||
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epitopepredict Resource Report Resource Website 1+ mentions |
epitopepredict (RRID:SCR_019221) | software application, simulation software, software resource | Open source software tool as programmatic framework and command line tool designed to aid process of MHC binding prediction. Provides access to multiple binding prediction algorithms under single interface and scales for whole genomes using multiple target MHC alleles.Software should be run on Linux operating system. Ubuntu is recommended but most major distributions will be fine. Windows is not supported. | Protein sequence, MHC binding prediction, whole genomes, multiple target MHC allele, epitope prediction, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Available for download, Freely available | biotools:epitopepredict | https://epitopepredict.readthedocs.io/en/latest/, https://bio.tools/epitopepredict | SCR_019221 | 2026-08-15 11:26:02 | 2 | ||||||||
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CAIRN Resource Report Resource Website |
CAIRN (RRID:SCR_019101) | data processing software, web service, data access protocol, software application, software resource, data visualization software | Web tool to graph all copy number alterations present in segment file. Custom data is permitted. Allows to display copy number alterations which overlap user specified region, to quantify number of amplified CNAs and deleted CNAs. Visualization tool to explore copy number alterations discovered in published cancer datasets. Intended to help oncology community observe of relative rates of amplification, deletion, and mutation of interesting genes and regions. | Deleted CNAs quantification, Copy Number Alterations, segment file, data visualization, published cancer datasets CNAs, amplified CNA quantification | Nine Girls Ask Foundation ; NCI CA207729; NIGMS GM132055; NCI CA107263; NCI CA177519; NCI CA102310; NIA AG033082; NCI P30 CA138313 |
PMID:31923184 | Free, Available for download, Freely available | https://github.com/jrdelaney/CAIRN | SCR_019101 | Copy Alterations Intuitive Rendering Navigator | 2026-08-15 11:26:03 | 0 | |||||||
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ABF Utility Resource Report Resource Website 1+ mentions |
ABF Utility (RRID:SCR_019222) | data processing software, software application, data analysis software, software resource | Software tool to convert data files from Mac program such as Igor and Pulse or John Dempster CDR, WinTida, to ABF formats and analyze them with Mini Analysis Program. | Convert data file, ABF format, data file, data format | Restricted | SCR_019224 | SCR_019222 | 2026-08-15 11:26:12 | 4 | ||||||||||
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OpenClinica Resource Report Resource Website 10+ mentions |
OpenClinica (RRID:SCR_019223) | data processing software, software application, software resource, data acquisition software | Web platform for electronic data capture by OpenClinica, LLC. Used as clinical trial management system. | Clinical trial, data management system, clinical trial management system, clinical data, clinical data management | is listed by: SoftCite | PMID:21893916 | Restricted | https://www.openclinica.com/community-edition-open-source-edc/ | SCR_019223 | 2026-08-15 11:26:05 | 46 | ||||||||
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Computational Anatomy Toolbox for SPM Resource Report Resource Website 500+ mentions |
Computational Anatomy Toolbox for SPM (RRID:SCR_019184) | CAT | software toolkit, data processing software, software application, data analysis software, software resource | Software toolbox as extension to SPM12 to provide computational anatomy. This covers diverse morphometric methods such as voxel based morphometry, surface based morphometry, deformation based morphometry, and region or label based morphometry. | MRI, neuroimaging, brain, voxel based morphometry, surface based morphometry, deformation based morphometry, label based morphometry, region based morphometry | works with: SPM | Free, Available for download, Freely available | SCR_019184 | CAT12 | 2026-08-15 11:26:02 | 581 | ||||||||
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tidyverse Resource Report Resource Website 100+ mentions |
tidyverse (RRID:SCR_019186) | software toolkit, data processing software, software application, data analysis software, software resource | Software tool as collection of R packages designed for data science which share underlying design philosophy, grammar, and data structures. Packages work in harmony because they share common data representations and API design. Used in everyday data analyses. | data science, R package, data analysis, common data representation |
uses: ggplot2 uses: dplyr uses: tidyr is used by: tidySingleCellExperiment is used by: microViz is listed by: CRAN |
Free, Available for download, Freely available | https://www.tidyverse.org/, https://github.com/tidyverse/tidyverse | SCR_019186 | tidyverse 1.3.0 | 2026-08-15 11:26:04 | 259 |
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