Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
CLC Genomics Server Resource Report Resource Website 10+ mentions |
CLC Genomics Server (RRID:SCR_017396) | data processing software, software application, software resource, data analysis software | Commercially available software tool for high throughput sequencing analysis, designed for use on central compute cluster or server. Can handle data volumes beyond capacity of desktop systems and manages submission of many jobs via its own queuing system or through submission of jobs to third party grid scheduler. | high, throughput, sequencing, analysis, data | works with: CLC Genomics Workbench | Restricted | SCR_017396 | 2026-08-04 09:44:08 | 18 | ||||||||||
|
DAQCORD Resource Report Resource Website 1+ mentions |
DAQCORD (RRID:SCR_017395) | DAQCORD | portal, data set, data or information resource | Software tool for practical self assessment and reporting method for clinical research studies, to capture key information about data acquisition and quality control measures. Linked to dataset so that potential research collaborators can determine if data meets their needs and expectations. | Assessment, reporting, method, clinical, study, data, acquisition, quality, control, information | Restricted | SCR_017395 | Data Access Quality and Curation for Observational Research Designs | 2026-08-04 09:44:12 | 2 | |||||||||
|
fineSTRUCTURE Resource Report Resource Website 10+ mentions |
fineSTRUCTURE (RRID:SCR_018170) | data processing software, software application, software resource, data analysis software | Software tool as algorithm for identifying population structure using dense sequencing data. Can perform model based Bayesian clustering on large datasets, including full resequencing data. | Identifying population structure, dense sequencing data, Bayesian clustering, large dataset, data, analysis, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Available for download, Freely available | biotools:finestructure | https://bio.tools/finestructure | SCR_018170 | FineSTRUCTURE version 2 | 2026-08-04 09:44:21 | 23 | |||||||
|
ChiCMaxima Resource Report Resource Website 1+ mentions |
ChiCMaxima (RRID:SCR_018178) | analysis service resource, web service, software resource, data access protocol, production service resource, service resource | Pipeline for analyzing and identificantion of chromatin loops in CHi-C promoters data. Used to capture Hi-C visualization and interaction calling. | Chromatin loop, CHi-C promoter, data, Hi-C visualization, interaction calling, data, analysis, bio.tools |
is listed by: Debian is listed by: bio.tools |
PMID:31118054 | Free, Freely available | biotools:ChiCMaxima | https://bio.tools/ChiCMaxima | SCR_018178 | 2026-08-04 09:44:17 | 2 | |||||||
|
SnpHub Resource Report Resource Website 1+ mentions |
SnpHub (RRID:SCR_018177) | web application, software resource | Web Shiny-based server framework for retrieving, analyzing and visualizing large genomic variations data. | Genomic, data, data visualization, data analysis, data retrieving, bio.tools |
is listed by: Debian is listed by: bio.tools |
National Natural Science Foundation of China 31701415; National Key Research and Development Program of China 2018YFD0100803; National Key Research and Development Program of China 2016YFD0100801 |
Free, Available for download, Freely available | biotools:SnpHub | http://guoweilong.github.io/SnpHub/, https://bio.tools/SnpHub | SCR_018177 | 2026-08-04 09:44:21 | 1 | |||||||
|
SpydrPick Resource Report Resource Website 1+ mentions |
SpydrPick (RRID:SCR_018176) | data processing software, software application, software resource, data analysis software | Software command line tool for performing direct coupling analysis of aligned categorical datasets. Used for analysis at scale of pan genomes of many bacteria. Incorporates correction for population structure, which adjusts for phylogenetic signal in data without requiring explicit phylogenetic tree. | Direct coupling analysis, aligned categorical datasets, analysis, genome, bacteria, phylogenetic signal, correction, phylogenetic tree, data, bio.tools |
is listed by: Debian is listed by: bio.tools |
COIN Center of Excellence ; Academy of Finland ; Wellcome Trust ; European Research Council |
PMID:31361894 | Free, Available for download, Freely available | biotools:SpydrPick | https://anaconda.org/bioconda/spydrpick, https://bio.tools/SpydrPick | SCR_018176 | 2026-08-04 09:44:17 | 2 | ||||||
|
GeneLab Resource Report Resource Website 10+ mentions |
GeneLab (RRID:SCR_017658) | GLDS | storage service resource, data repository, service resource, database, data or information resource | Omics database for spaceflight experiments. Interactive, open access resource where scientists can upload, download, store, search, share, transfer, and analyze omics data from spaceflight and corresponding analogue experiments. Enables exploration of molecular network responses of terrestrial biology to space environment. Contains curated omics data, metadata and radiation dosimetry for model organisms. Supports standard guidelines for submission of datasets, MIAME for microarray, ENCODE Consortium Guidelines for RNA-seq and MIAPE Guidelines for proteomics. | Omics, spaceflight, experiment, data, system, bioinformatic, repository, terrestrial, biology, space, radiation, dosimetry, model, organism, standard, guideline, submission, dataset |
uses: MIAME is related to: NASA Science |
Space Life and Physical Sciences Division at NASA Headquarters | PMID:30329036 | r3d100013680 | https://www.nasa.gov/centers-and-facilities/ames/what-is-nasas-genelab/, https://doi.org/10.17616/R31NJN1S | SCR_017658 | GeneLab Data System | 2026-08-04 09:44:12 | 30 | |||||
|
MaxTRAQ Resource Report Resource Website 1+ mentions |
MaxTRAQ (RRID:SCR_018188) | data processing software, software application, software resource, data analysis software | Software package for motion capture analysis by Innovision Systems Inc. | Motion capture, analysis, data, data tracking, Innovision Systems Inc. | Restricted | SCR_018188 | Innovision Systems MaxTRAQ software | 2026-08-04 09:44:18 | 1 | ||||||||||
|
NeMO Analytics Resource Report Resource Website 10+ mentions |
NeMO Analytics (RRID:SCR_018164) | data analysis service, portal, analysis service resource, topical portal, production service resource, service resource, data or information resource | Portal enabling web based visualization and analysis of multi omic data describing cell types in developing and adult brain, powered by gEAR and EpiViz. Release 1 on April 2019 includes single cell and bulk tissue RNAseq, ATACseq, and ChIPseq from fetal human prefrontal cortex, as well as from stem cell models of neural induction. Portal will expand to include multiple regions of developing and adult brain and additional analytical tools. | Visualization, analysis, multi omic data, cell type, developing brain, adult brain, RNAseq, ATACseq, CHIPseq, fetal human prefrontal cortex, stem cell, neural induction, brain, data |
is used by: BICCN is related to: NeMOarchive is related to: BRAIN Initiative is related to: Brainome portal is related to: BRAIN Initiative Cell Atlas Network |
Free, Freely available | SCR_018244 | SCR_018164 | Neuroscience Multi-Omic Analytics | 2026-08-04 09:44:17 | 13 | ||||||||
|
Fcirc Resource Report Resource Website 1+ mentions |
Fcirc (RRID:SCR_018090) | Fcirc | data processing software, software application, software resource, workflow software | Software Python pipeline for linear and circular RNAs of known fusions exploration. Pipeline for exploring linear transcripts and circRNAs of known fusions based on RNA-Seq data. Known fusion genes are from multiple databases like COSMIC, ChimerDB, TicDB, FARE-CAFE and FusionCancer or user-added gene-pairs. | Fusion gene, linear and circular RNA, fusion exploration, RNAseq data, linear transcript, circRNA, gene, data, pipeline, bio.tools |
uses: HISAT2 uses: SAMTOOLS is listed by: Debian is listed by: bio.tools |
National Natural Science Foundation of China 31771469 ; National Natural Science Foundation of China 31571363 ; National Natural Science Foundation of China 81573023 ; National Key Research and Development Program 2017YFC0908500 |
Free, Available for download, Freely available | biotools:Fcirc | https://bio.tools/Fcirc | SCR_018090 | Comprehensive Pipeline for Exploration of Fusion Linear and Circular RNAs | 2026-08-04 09:44:16 | 2 | |||||
|
MIALAB - Medical Image Analysis Lab Resource Report Resource Website 10+ mentions |
MIALAB - Medical Image Analysis Lab (RRID:SCR_006089) | MIALAB | portal, organization portal, laboratory portal, data or information resource | MIALAB, headed by Dr. Vince Calhoun, focuses on developing and optimizing methods and software for quantitative analysis of structure and function in medical images with particular focus on the study of psychiatric illness. We work with many types of data, including functional magnetic resonance imaging (fMRI), diffusion tensor imaging (DTI), electroencephalography (EEG), structural imaging and genetic data. Much of our time is spent working on new methods for flexible analysis of brain imaging data. The use of data driven approaches is very useful for extracting potentially unpredictable patterns within these data. However such methods can be further improved by incorporating additional prior information as constraints, in order to benefit from what we know. To this end, we draw heavily from the areas of image processing, adaptive signal processing, estimation theory, neural networks, statistical signal processing, and pattern recognition. | software, data, data visualization, medical image, image, neuroimaging, fmri, diffusion tensor imaging, electroencephalography, structural imaging, genetic data, brain, image processing, adaptive signal processing, estimation theory, neural network, statistical signal processing, pattern recognition, mri |
has parent organization: Mind Research Network is parent organization of: Group ICA of fMRI Toolbox is parent organization of: Group ICA Of EEG Toolbox is parent organization of: MIALAB - Resting State Data |
Mental disease | nlx_151551 | SCR_006089 | Medical Image Analysis Lab, Medical Image Analysis Laboratory, MIA Laboratory, Medical Image Analysis (MIA) Laboratory | 2026-08-04 09:41:31 | 27 | |||||||
|
ChemSpider Resource Report Resource Website 1000+ mentions |
ChemSpider (RRID:SCR_006360) | ChemSpider | web service, software resource, data access protocol, software application, mobile app, service resource, database, data or information resource | Collection of chemical structures. Provides access to structures, properties and associated information from hundreds of data sources to find compounds of interest and provides services to improve this data by curation and annotation and to integrate it with users applications. | collection, chemical, structure, property, data, compound, bio.tools, FASEB list |
is used by: Open PHACTS is used by: GEROprotectors is listed by: re3data.org is listed by: bio.tools is listed by: Debian has parent organization: Royal Society of Chemistry |
Waters ; GGA Software Services |
Free, Freely available, Registration required for some sites | nlx_152101, biotools:chemspider, r3d100010205 | https://bio.tools/chemspider, https://doi.org/10.17616/R38P4P | SCR_006360 | 2026-08-04 09:41:35 | 1759 | ||||||
|
Proteome Commons Resource Report Resource Website 10+ mentions |
Proteome Commons (RRID:SCR_006234) | Proteome Commons | portal, storage service resource, software resource, community building portal, data repository, service resource, database, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 17, 2013. A public resource for sharing general proteomics information including data (Tranche repository), tools, and news. Joining or creating a group/project provides tools and standards for collaboration, project management, data annotation, permissions, permanent storage, and publication. | proteomics, protein, peptide, data sharing, data, tool, news, annotation, proteome, genome |
is listed by: re3data.org has parent organization: University of Michigan; Ann Arbor; USA is parent organization of: Proteome Commons Tranche repository |
NCI ; Clinical Proteomics Technologies for Cancer ; NCRR P41-RR018627 |
PMID:20356086 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151800 | SCR_006234 | ProteomeCommons.org, ProteomeCommons | 2026-08-04 09:41:33 | 12 | |||||
|
syGlass Resource Report Resource Website 10+ mentions |
syGlass (RRID:SCR_017961) | data processing software, data analysis software, software resource, software application, data visualization software | Software visualization tool for direct volume rendering with no segmentation required. Enables users to view, annotate and analyze 3D data in VR. Data visualization and annotation system that allows rendering of large, volumetric data in its true, three- or four-dimensional form. | Direct, volume, rendering, no segmentation, view, analyze, annotate, 3D, data, large, volumetric, IstoVisio, Inc | Commercially available | SCR_017961 | 2026-08-04 09:44:16 | 16 | |||||||||||
|
Adobe Photoshop Lightroom Resource Report Resource Website 1+ mentions |
Adobe Photoshop Lightroom (RRID:SCR_018012) | data processing software, software application, image processing software, software resource | Camera raw data processing software. Cloud-based service to edit, organize, store, and share photos across any device. | Data, processing, editing, organizing, storing, sharing, photograph, image | is related to: Adobe Photoshop | Restricted | SCR_018012 | 2026-08-04 09:44:19 | 3 | ||||||||||
|
ISB Cancer Genomics Cloud Resource Report Resource Website 1+ mentions |
ISB Cancer Genomics Cloud (RRID:SCR_017681) | ISB-CGC | storage service resource, software resource, data repository, service resource, web application | Web tool as flexible cloud-based platform for cancer genomics research. Platform that serves as large-scale repository and provides computational infrastructure necessary to carry out cancer genomics research at unprecedented scales. ISB-CGC is providing access to TCGA data and computation on Google Cloud Platform. | Cancer, genomics, repository, data | National Cancer Institute ; National Institutes of Health |
PMID:29092928 | Restricted | SCR_017681 | ISB Cancer Genomics Cloud, Institute for Systems Biology Cancer Genomics Cloud | 2026-08-04 09:44:12 | 9 | |||||||
|
SonarCloud Vulnerable Code Prospector for C Resource Report Resource Website |
SonarCloud Vulnerable Code Prospector for C (RRID:SCR_018011) | SVCP4C | data set, storage service resource, data repository, service resource, data or information resource | Software tool to collect vulnerable source code from open-source repositories linked to SonarCloud. Dataset repository with tagged files with BufferOverflow features associated to source code repositories publicly available. | Repository, SonarCloud, data, dataset, BufferOverflow | DOI:10.3390/app10041270 | Free, Available for download, Freely available | SCR_018011 | SonarCloud Vulnerable Code Prospector for C, SVCP4CDataset | 2026-08-04 09:44:16 | 0 | ||||||||
|
GADMA Resource Report Resource Website 1+ mentions |
GADMA (RRID:SCR_017680) | GADMA | data processing software, software application, software resource, data analysis software | Software tool to implement methods for automatic inferring joint demographic history of multiple populations from genetic data. Genetic algorithm for inferring demographic history of multiple populations from allele frequency spectrum data. | Inferring, demographic, history, population, genetic, data, allele, frequency, spectrum, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
DOI:10.1101/407734 | Free, Available for download, Freely available | biotools:GADMA | https://bio.tools/GADMA | SCR_017680 | Genetic Algorithm for Demographic Model Analysis | 2026-08-04 09:44:11 | 3 | |||||
|
CRISPy-web Resource Report Resource Website 10+ mentions |
CRISPy-web (RRID:SCR_017970) | data access protocol, software resource, web service | Web tool to design sgRNAs for CRISPR applications. Web tool based on CRISPy to design sgRNAs for any user-provided microbial genome. Implemented as standalone web application for Cas9 target prediction. | Design, sgRNA, CRISP, microbial, genome, Cas9, target, prediction, data, guide, single, editing, bio.tools |
is listed by: bio.tools is listed by: Debian |
Novo Nordisk Foundation | PMID:29062934 | Free, Freely available | biotools:crispy | https://bio.tools/crispy | SCR_017970 | single guide RNA desing | 2026-08-04 09:44:16 | 25 | |||||
|
VEnCode Resource Report Resource Website 1+ mentions |
VEnCode (RRID:SCR_018024) | VEnCode | data processing software, software application, software resource, data analysis software | Software tool to perform intersectional genetics-related operations to find VEnCodes using databases provided by FANTOM5 consortium, namely CAGE enhancer and transcription start site (TSS) databases. | FANTOM5 consortium, data, CAGE enhancer, transcription site database, intersectional genetics, bio.tools |
is listed by: Debian is listed by: bio.tools |
DOI:10.1101/552984 | Free, Available for download, Freely available | BioTools:VEnCode, biotools:VEnCode | https://bio.tools/VEnCode, https://bio.tools/VEnCode, https://bio.tools/VEnCode | SCR_018024 | Versatile Entry Codes | 2026-08-04 09:44:20 | 1 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
