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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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BlogMyData Resource Report Resource Website |
BlogMyData (RRID:SCR_008697) | data or information resource, software development tool, narrative resource, documentation generation software, software application, software resource, blog | Software tool for data sharing, incorporating blogs and spatial registration of data. Mainly used in geological data sets. A Virtual Research Environment (VRE) aims to combine the capabilities of two existing technologies that have already seen wide adoption among scientists: - The Godiva2 data visualization system provides a means for scientists to browse interactively in a ''Google Maps-like'' fashion through large environmental datasets, including numerical model outputs and high-resolution satellite imagery, using only a web browser. - The LabBlog is a web-based blogging tool specifically designed for the practising scientist to record, disseminate and evaluate their research. The Blog can also be used as a collaboration tool that allows secure discussion between colleagues. Although initially designed for the use of laboratory chemists, the LabBlog is being adapted in this project to meet the needs of environmental scientists. The BlogMyData VRE will allow scientists to explore data visually using Godiva2, then make comments about features in the data on a blog. Colleagues will discover these blog entries and offer further information, providing answers to research questions through comments. Through RSS and GeoRSS feeds, colleagues, investigators and other interested parties can be notified of research activity, and scientists can discover hitherto-unknown colleagues working with similar data in similar geographic regions. Sponsors: BlogMyData is a collaboration between the Reading e-Science Centre and the University of Southampton and is one of the JISC VRERI projects. | blog, technology, scientist, visualization, environmental, dataset, model, data | has parent organization: University of Southampton; Southampton; United Kingdom | nif-0000-37662 | SCR_008697 | BlogMyData | 2026-08-05 10:45:06 | 0 | |||||||||
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International Observatory on Neuro-Information Resource Report Resource Website 1+ mentions |
International Observatory on Neuro-Information (RRID:SCR_008690) | data or information resource, topical portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 16, 2013. The International Observatory on Neuro-Information is the central source of knowledge, research and data on all skills and issues for Neuroscience applied in Information Sciences. It is an initiative of the Documentation Sciences Foundation, from Spain, which aims to gather information, express opinions, prepare documents, make comparative research, support and promote policy-making, evaluate trends, and take other appropriate action relating to the Neuroscience and its application to the Information Sciences (Libraries, Archives, Documentation centers), and how the traditional knowledge of Information Sciences can bring expertise in data visualization and retrieval techniques, records management, quality assurance and usability in Neuroscience. The Observatory may work together, or in agreement with other national or international organizations pursuing similar or compatible aims. | observatory, neuroscience, research, knowledge, data, science | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-37631 | SCR_008690 | Neuro-information | 2026-08-05 10:45:04 | 8 | |||||||||
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Brain Products Resource Report Resource Website 100+ mentions |
Brain Products (RRID:SCR_009443) | Brain Products GmbH | instrument manufacture, service resource, production service resource, material service resource | Commercial organization for hardware and software for neurophysiological research. Provides EEG and ERP amplifier systems, EEG recording caps, Data recording and analysis software, TMS Stimulator for combined EEG/TMS coregistrations and more. | manufacture, instruments, hardware, software, neurophysiological, research, EEG, ERP, EEG/fMRI, BCI, amplifier, recording, cap, data, analysis, software, TMS, stimulator | is related to: BrainVision Analyzer | nlx_155587 | SCR_009443 | 2026-08-05 10:45:13 | 105 | |||||||||
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GENEPOP Resource Report Resource Website 1000+ mentions |
GENEPOP (RRID:SCR_009194) | Genepop | software resource, data processing software, software application, data analysis software | Population genetic data analysis software package. Used to perform exact Hardy Weinberg Equilibrium test. Used for population differentiation and for genotypic disequilibrium among pairs of loci. Computes estimates of F-statistics, null allele frequencies, allele size-based statistics for microsatellites, etc. and performs analyses of isolation by distance from pairwise comparisons of individuals or population samples., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Population, differentation, genetic, data, analysis, Hardy Weinberg Equilibrium test, statistics, genotyping, disequilibrium, pair, loci, allele, frequency |
is listed by: Genetic Analysis Software is listed by: CRAN |
PMID:21585727 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154337 | https://kimura.univ-montp2.fr/~rousset/Genepop.htm, https://cran.r-project.org/web/packages/genepop/index.html | SCR_009194 | genepop'007 | 2026-08-05 10:45:07 | 2266 | |||||
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miRDeep Resource Report Resource Website 100+ mentions |
miRDeep (RRID:SCR_010829) | miRDeep2 | data processing software, software application, sequence analysis software, data analysis software, software resource | Software tool to identify known and novel miRNA genes in seven animal clades by analyzing sequenced RNAs. Used for discovering known and novel miRNAs from small RNA sequencing data. | miRNA, gene, animal, clade, analysis, sequence, RNA, data | is listed by: OMICtools | Helmholtz-Alliance on Systems Biology ; Helmholtz Association ; German Ministry of Education and Research ; Senate of Berlin ; China Scholarship Council ; Max Delbrück Centrum Systems Biology Network |
PMID:18392026 PMID:21911355 |
Free, Available for download, Freely available | OMICS_00373 | https://github.com/rajewsky-lab/mirdeep2 | SCR_010829 | 2026-08-05 10:45:28 | 163 | |||||
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The Immunology Database and Analysis Portal (ImmPort) Resource Report Resource Website 500+ mentions |
The Immunology Database and Analysis Portal (ImmPort) (RRID:SCR_012804) | ImmPort | data or information resource, data repository, portal, controlled vocabulary, disease-related portal, topical portal, database, storage service resource, ontology, service resource | Data sharing repository of clinical trials, associated mechanistic studies, and other basic and applied immunology research programs. Platform to store, analyze, and exchange datasets for immune mediated diseases. Data supplied by NIAID/DAIT funded investigators and genomic, proteomic, and other data relevant to research of these programs extracted from public databases. Provides data analysis tools and immunology focused ontology to advance research in basic and clinical immunology. | immunology, basic, clinical, data, share, store, analyze, exchange, dataset, immune, mediated, disease, analysis, tool, FASEB list |
is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: NIDDK Research Resources is affiliated with: Cytokine Registry is related to: MetaCyto is related to: The 10000 Immunomes is related to: NIAID |
Immune mediated disease | NIH ; NIAID ; DAIT ; NIAID HHSN266200400076C; NIAID HHSN272201200028C |
PMID:24791905 | nlx_152691, r3d100012529 | http://www.immport.org/immport-open/public/home/home, http://www.immport.org/ | http://www.immport.org | SCR_012804 | Immunology Data and Analysis Portal, ImmPort system, ImmPort, Immunology Database and Analysis Portal | 2026-08-05 10:45:49 | 987 | |||
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HED Tags Resource Report Resource Website 1+ mentions |
HED Tags (RRID:SCR_014074) | HED | data or information resource, standard specification, 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, BRAIN Initiative |
is used by: NIMH Data Archive is used by: HeadIT is used by: OpenNeuro is recommended by: BRAIN Initiative has parent organization: University of California at San Diego; California; USA |
Swartz Foundation ; Army Research Laboratory Cooperative Agreement ; NIMH R01MH084819; NINDS R01 NS047293 |
PMID:27799907 | Free, Freely available | SCR_017630 | SCR_014074 | Hierarchical Event Descriptor Tags, Hierarchical Event Descriptor, HED, HED tags | 2026-08-05 10:46:06 | 7 | |||||
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Skyline Resource Report Resource Website 1000+ mentions |
Skyline (RRID:SCR_014080) | software resource, data processing software, software application, data analysis software | Software tool as Windows client application for targeted proteomics method creation and quantitative data analysis. Open source document editor for creating and analyzing targeted proteomics experiments. Used for large scale quantitative mass spectrometry studies in life sciences. | Proteomics, SRM, MRM, DDA, DIA, shotgun, mass, spectrometry, data, analysis, quantitative |
uses: MSstats is related to: ProteoWizard has parent organization: University of Washington; Seattle; USA works with: PanoramaWeb |
NCI U24 CA126479; NIDDK R01 DK069386; NCRR P41 RR011823; NIA P30 AG013280; NHLBI R01 HL082747 |
PMID:20147306 | Free, Available for download, Freely available | SCR_014080 | 2026-08-05 10:46:01 | 2805 | ||||||||
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Origin Resource Report Resource Website 10000+ mentions |
Origin (RRID:SCR_014212) | data processing software, software application, data visualization software, data analysis software, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on December 4, 2025.Software application for data analysis and graphing. Origin contains a variety of different graph types, including statistical plots, 2D and 3D vector graphs, and counter graphs. More advance version is OriginPro which offers advanced analysis tools and Apps for Peak Fitting, Surface Fitting, Statistics and Signal Processing. | data, analysis, software, authoring, tool, scripting, graphing, statistical, publication |
is listed by: SoftCite is related to: OriginPro |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_015636 | https://www.originlab.com/index.aspx?go=PRODUCTS&PID=1834 | SCR_014212 | OriginPro | 2026-08-05 10:46:03 | 13956 | |||||||
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Bamtools Resource Report Resource Website 100+ mentions |
Bamtools (RRID:SCR_015987) | data processing software, data management software, software application, data analysis software, software toolkit, software resource | Software that provides both a C++ API and a command-line toolkit for reading, writing, and manipulating genome sequence alignment files in the BAM and SAM formats. It is used for research analysis and management of data produced by sequencing technologies. | c++, api, sam, bam genome, sequence, alignment, data, analysis, management, command, manipulation, binary, map, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: OMICtools |
NHGRI R01 HG004719; NHGRI RC2 HG005552 |
PMID:21493652 DOI:10.1093/bioinformatics/btr174 |
biotools:bamtools, OMICS_11315 | https://bio.tools/bamtools, https://sources.debian.org/src/bamtools/ | SCR_015987 | API:Application Programming Interface, BAM:Binary Alignment Map, SAM:Sequence Alignment Map | 2026-08-05 10:46:31 | 324 | ||||||
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Blixem Resource Report Resource Website 1+ mentions |
Blixem (RRID:SCR_015994) | data processing software, image analysis software, software application, alignment software, software resource | Software for sequence alignments that displays multiple match sequences aligned against a single genomic reference sequence. It can be used for manipulation, display and annotation of genomic data, to check the quality of an alignment, to find missing/misaligned sequence, and to identify splice sites and polyA sites. | software, sequence, alignment, annotation, genomic, reference, data, display, manipulation, DNA |
is related to: SEQtools has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
Wellcome Trust Grant 098051; NHGRI U54 HG00455 |
PMID:26801397 | Free, Available for download | SCR_015994 | SEQtools Blixem | 2026-08-05 10:46:31 | 2 | |||||||
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little-man-task Resource Report Resource Website |
little-man-task (RRID:SCR_016018) | data processing software, data management software, software application, data transfer software, software resource | Software tool to manage data and derived results. It is used for import of derived measures into REDCap (Research Electronic Data Capture). | capture, data, manage, derive, measure, abcd, study | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016018 | 2026-08-05 10:46:32 | 0 | |||||||||
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aux-file-upload Resource Report Resource Website |
aux-file-upload (RRID:SCR_016026) | data processing software, data management software, software application, data transfer software, software resource | Software application to upload functional MR imaging runs produce auxilary data that can be collected centrally. Connects to a subject database research electronic data capture (REDCap). | upload, data, transmitted, addition, basic, calculation, subject, database, research, electronic, capture, imaging, session, abcd |
is related to: University of California at San Diego; California; USA works with: ABCD Study works with: REDCap |
NIDA U24 DA041123 | Free, Available for download | SCR_016026 | 2026-08-05 10:46:32 | 0 | |||||||||
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FIONA-QC-PHANTOM Resource Report Resource Website 1+ mentions |
FIONA-QC-PHANTOM (RRID:SCR_016024) | software resource, data processing software, software application, data analysis software | Software for online quality control operations performed on Phantom MRI data. It checks the accuracy and reproducibility of data. | application, quality, control, operation, phantom, MRI, data, accurate, reproducible, online, qc |
is related to: University of California at San Diego; California; USA is related to: ABCD Study works with: Diffusion MRI - In-vivo and Phantom Data |
NIDA U24 DA041123 | Free, Available for download | SCR_016024 | 2026-08-05 10:46:31 | 1 | |||||||||
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nih-ipad-app-end-point Resource Report Resource Website |
nih-ipad-app-end-point (RRID:SCR_016029) | data processing software, data acquisition software, software application, software resource, data storage software | Data collection software for centrally and securely storing data from the NIH iPad application. It allows users to capture results from multiple iPads at a central location. | abcd, collect, tool, central, storing, data, NIH, iPad, application, secure, capture, result, multiple, location | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016029 | 2026-08-05 10:46:32 | 0 | |||||||||
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GARLI Resource Report Resource Website 100+ mentions |
GARLI (RRID:SCR_016117) | GARLI | data processing software, data analysis software, software application, software resource | Software application for inferring phylogenetic trees and analysis of molecular sequence data using the maximum-likelihood criterion. It implements nucleotide, amino acid and codon-based models of sequence evolution. | inference, phylogenetic, tree, analysis, molecular, sequence, data, maximum, likelihood, criterion, nucleotide, amino acid, codon, model, evolution |
is listed by: Debian is listed by: OMICtools |
Free, Available for download, Freely available | OMICS_04234 | https://code.google.com/archive/p/garli/, https://sources.debian.org/src/garli/ | SCR_016117 | Genetic Algorithm for Rapid Likelihood Inference | 2026-08-05 10:46:32 | 279 | ||||||
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DIAMOND Resource Report Resource Website 100+ mentions |
DIAMOND (RRID:SCR_016071) | data processing software, software application, sequence analysis software, data analysis software, software resource | Software that performs sequence alignment for protein and translated DNA searches and functions. Used for high performance analysis of big sequence data, protein-protein search, and DNA-protein search. | sequence, aligner, high, performance, analysis, big, data, protein, DNA, bio.tools |
is listed by: bio.tools is listed by: Debian is listed by: OMICtools has parent organization: University of Tubingen; Tubingen; Germany |
PMID:25402007 DOI:10.1038/nmeth.3176 |
Free, Available for download | OMICS_08011, biotools:diamond | https://bio.tools/diamond, https://sources.debian.org/src/diamond-aligner/ | SCR_016071 | 2026-08-05 10:46:32 | 386 | |||||||
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Datamash Resource Report Resource Website 1+ mentions |
Datamash (RRID:SCR_016067) | software resource, data processing software, software application, data analysis software | Software for a command-line interface which performs basic numeric, textual and statistical operations on input textual data files. It is designed to aid researchers in automating analysis pipelines, without writing code or short scripts. | command-line, interface, basic, numerical, textual, statistical, operation, input, data, files, automate, analysis, pipelines | is listed by: Debian | Free Software Foundation (FSF) | Free, Available for download | https://sources.debian.org/src/datamash/ | SCR_016067 | GNU Datamash | 2026-08-05 10:46:32 | 2 | |||||||
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NeuroXM Brain Science Suite Resource Report Resource Website |
NeuroXM Brain Science Suite (RRID:SCR_016372) | data processing software, software application, data visualization software, data analysis software, software toolkit, software resource | Software toolkit for semantic integration of multi-modal brain data. It is used to collect, structure, connect, analyze and re-use brain data. | semantic, data, graph, neuroscience, neuroanatomy, ontology, circuitry, pathway, multimodal, brain | Commercially available | SCR_016372 | Brain Science Suite, NeuroXM, NeuroXM Suite | 2026-08-05 10:46:37 | 0 | ||||||||||
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Research Data Management Platform Resource Report Resource Website 1+ mentions |
Research Data Management Platform (RRID:SCR_016268) | RDMP | data or information resource, data repository, data management software, software application, software toolkit, software resource, storage service resource, service resource | Software toolkit which automates the loading, storage, linkage and provision of data sets. It also cleans, transforms and documents provenance meta-data and domain knowledge to make data sets “research ready”. | metadata, reproducibility, anonymization, security, audit, clinical, dataset, translational, research, data, management, catalogue, health, informatics, linkage | has parent organization: University of Dundee; Scotland; United Kingdom | Medical Research Council (MRC) MR/M501633/1; Wellcome Trust WT086113; EU Horizon 2020 633983 |
Free, Available for download | https://hic.dundee.ac.uk/Installers/RDMP/Stable/ | SCR_016268 | 2026-08-05 10:46:33 | 2 |
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