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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BayeScan Resource Report Resource Website 50+ mentions |
BayeScan (RRID:SCR_022018) | data processing software, data analysis software, software resource, software application | Software tool to identify candidate loci under natural selection from genetic data, using differences in allele frequencies between populations. | identify candidate loci under natural selection, genetic data, differences in allele frequencies between populations |
has parent organization: University of Bern; Bern; Switzerland has parent organization: SIB Swiss Institute of Bioinformatics |
University of Bern Research Foundation ; Swiss National Science Foundation |
DOI:10.1534/genetics.108.092221 DOI:10.1111/j.1365-294X.2010.04820.x DOI:10.1111/j.1365-294X.2011.05015.x |
Free, Available for Download, Freely available | SCR_022018 | 2026-08-12 10:52:39 | 89 | ||||||||
|
HiCExplorer Resource Report Resource Website 100+ mentions |
HiCExplorer (RRID:SCR_022111) | data processing software, data analysis software, software resource, software application | Software tool to analyse Hi-C and capture Hi-C data. Command line suite of tools to process, normalize and visualize Hi-C data. | Hi-C, process, normalize, visualize, Hi-C data, capture Hi-C data | Free, Available for download, Freely available | SCR_022111 | 2026-08-12 10:52:27 | 133 | |||||||||||
|
Genie 2000 Basic Resource Report Resource Website 1+ mentions |
Genie 2000 Basic (RRID:SCR_021933) | data acquisition software, software application, data processing software, software resource, data analysis software | Software tool as comprehensive environment for data acquisition, display and analysis of gamma and alpha spectrometry data. | Data acquisition, display, analysis, gamma and alpha spectrometry data | Restricted | SCR_021933 | Genie 2000 Basic Spectroscopy Software, Marion Technologies Genie 2000 Basic Spectroscopy Software, Marion Technologies Genie 2000 Basic | 2026-08-12 10:52:25 | 3 | ||||||||||
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SARS-CoV-2 network analysis Resource Report Resource Website 1+ mentions |
SARS-CoV-2 network analysis (RRID:SCR_021811) | software application, data processing software, time-series analysis software, software resource, network analysis software, data analysis software, 1d time-series analysis software | Software tool to predict human proteins that interact with SARS-CoV-2 proteins and trace provenance of predictions. | network propagation; interpretable machine learning; provenance tracing; SARS-CoV-2; COVID-19; virus-host protein interaction networks | Free, Available for download, Freely available | SCR_021811 | SARS-CoV-2-network-analysis, SARS-CoV-2 Protein Interaction Network Analysis | 2026-08-12 10:52:24 | 1 | ||||||||||
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IBM SPSS Statistics Resource Report Resource Website 1000+ mentions |
IBM SPSS Statistics (RRID:SCR_016479) | data visualization software, software application, data processing software, software resource, data analysis software | Software package for statistics. Used to analyze and visualize data. Extensions can be used, Python and R programming language code, to integrate with open source software. Available for Windows and Mac operating systems.Versions that were produced by SPSS Inc. before the IBM acquisition (Versions 18 and earlier) would be given origin or publisher of SPSS Inc. in Chicago. Versions that were released after the acquisition would be given origin or publisher of IBM Corp. in Armonk, NY. | Statistics, data analysis, data visualization, statistical analysis, IBM, IBM SPSS, advanced analytics |
is related to: SPSS is related to: IBM SPSS Amos |
Restricted | SCR_019096, SCR_021965 | https://www.ibm.com/support/pages/downloading-ibm-spss-statistics-24, https://www.ibm.com/support/pages/how-cite-ibm-spss-statistics-or-earlier-versions-spss#:~:text=IBM%20SPSS%20Statistics%20for%20Windows%2C%20Version%2025.0, Armonk%2C%20NY%3A%20IBM%20Corp.&text=For%20platforms%20other%20than%20Windows, Statistics%20for%20Macintosh%2C%20Version%2027.0. | SCR_016479 | SPSS Statistics v26, SPSS Statistics v27, SPSS Statistics v24, SPSS Statistics v25 | 2026-08-12 10:51:26 | 1172 | |||||||
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TractionsForAll Resource Report Resource Website 1+ mentions |
TractionsForAll (RRID:SCR_021819) | data processing software, data analysis software, software resource, software application | Software tool to calculate 2D tractions exerted by adherent cell on its substrate. Used in field of mechanobiology to study contractile responses of variety of cell types. | Traction force analysis, 2D tractions, adherent cell, mechanobiology, cell contractile responses | uses: MATLAB | Free, Freely available | SCR_021819 | 2026-08-12 10:52:45 | 2 | ||||||||||
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NHP pycortex Resource Report Resource Website 1+ mentions |
NHP pycortex (RRID:SCR_021815) | data processing software, data visualization software, software resource, software application | Software tool as adaptation for NHP brains and pipelines. Pycortex python based toolkit for surface visualization of fMRI data. | fMRI data, surface visualization | has parent organization: Royal Netherlands Academy of Arts and Sciences; Amsterdam; Netherlands | Free, Available for download, Freely available | SCR_021815 | NHP-pycortex | 2026-08-12 10:52:24 | 1 | |||||||||
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SqueezeMeta Resource Report Resource Website 10+ mentions |
SqueezeMeta (RRID:SCR_021821) | data processing software, data analysis software, software resource, software application | Software tool as fully automated pipeline for metagenomic analysis. Used for metagenomics covering all steps of analysis. Features several characteristics including co-assembly procedure or co-assembly of unlimited number of metagenomes via merging of individual assembled metagenomes, both with read mapping for estimation of abundances of genes in each metagenome. Includes binning and bin checking for retrieving individual genomes. | automated metagenomics pipeline, metagenomics analysis steps, metagenomic analysis | Spanish Ministry of Economy and Competitiveness. | DOI:10.3389/fmicb.2018.03349 | Free, Available for download, Freely available | SCR_021821 | 2026-08-12 10:52:38 | 20 | |||||||||
|
PolySTest Resource Report Resource Website 10+ mentions |
PolySTest (RRID:SCR_021942) | software resource, data access protocol, web service | Web service for statistical testing, data browsing and interactive visualization. Contains multiple statistical tests and new method to incorporate missing values. Robust statistical testing of proteomics data with missing values to improve detection of biologically relevant features., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Statistical testing, data browsing, interactive visualization, missing values | has parent organization: University of Southern Denmark; Denmark | DOI:10.1074/mcp.RA119.001777 | THIS RESOURCE IS NO LONGER IN SERVICE | https://bitbucket.org/veitveit/polystest | SCR_021942 | 2026-08-12 10:52:25 | 11 | ||||||||
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Bayesian Analysis of Single Cell Sequencing Resource Report Resource Website 1+ mentions |
Bayesian Analysis of Single Cell Sequencing (RRID:SCR_021829) | data processing software, data analysis software, software resource, software application | Software tool for Bayesian analysis of single cell sequencing data. Used to perform statistical analyses of single cell RNA sequencing datasets in context of supervised experiments. | Bayesian analysis, single cell sequencing data, single cell RNA sequencing datasets, statistical analyses, supervised experiments | PMID:26107944 | Free, Available for download, Freely available | https://github.com/catavallejos/BASiCS | SCR_021829 | BASiCS, Bayesian Analysis of Single-Cell Sequencing data | 2026-08-12 10:52:24 | 2 | ||||||||
|
Circa Resource Report Resource Website 10+ mentions |
Circa (RRID:SCR_021828) | data visualization software, software application, data processing software, data analytics software, software resource | Software tool used to plot circular plots and visualize genomic data along genomic locations. | OMGenomics, | Restricted | SCR_021828 | visualize genomic data, OMGenomics Circa, circular plots | 2026-08-12 10:52:38 | 19 | ||||||||||
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PsychENCODE Resource Report Resource Website 1+ mentions |
PsychENCODE (RRID:SCR_021760) | data or information resource, portal, consortium, organization portal | Collaboration between research institutes working to provide framework of regulatory genomic elements in individuals with neuropsychiatric disorders.Collaboration has resulted in comprehensive set of manuscripts published in Science providing new insights into biology of developing, adult, and diseased human brain.Manuscripts are organized around three flagship articles, first analyzing human development, second studying disease transcriptomes, and third integrating tissue and single cell data with deep learning approaches. | regulatory genomic elements, neuropsychiatric disorders, diseased human brain, manuscripts published in Science | Free, Freely available | SCR_021760 | 2026-08-12 10:52:37 | 9 | |||||||||||
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MeDuSa Resource Report Resource Website 50+ mentions |
MeDuSa (RRID:SCR_022058) | software resource, data access protocol, web service | Web server of multi draft based scaffolder.Exploits information obtained from set of genomes from related organisms to determine correct order and orientation of contigs. | Multi draft based scaffolder, genomes, related organisms, contigs, contigs correct order determination, contigs orientation determination | PMID:25810435 | Free, Freely available | SCR_022058 | Multi-Draft based Scaffolder | 2026-08-12 10:52:27 | 67 | |||||||||
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ProQ3 Resource Report Resource Website 10+ mentions |
ProQ3 (RRID:SCR_021880) | software resource, data access protocol, web service | Improved model quality assessments using Rosetta energy terms. Predictor combines training features from ProQRosCen, ProQRosFA and ProQ2. | model quality assessments, model quality prediction | Swedish Research Council ; Swedish eScience Research Center |
DOI:10.1038/srep33509 | Free, Freely available | SCR_021880 | Proq3 | 2026-08-12 10:52:46 | 11 | ||||||||
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Colorado School of Mines; Golden; Colorado Resource Report Resource Website 1+ mentions |
Colorado School of Mines; Golden; Colorado (RRID:SCR_022054) | data or information resource, topical portal, portal | Public research university in Golden, Colorado, founded in 1874. School offers both undergraduate and graduate degrees in engineering, science, and mathematics, with focus on energy and environment. |
is parent organization of: Colorado School of Mines Shared Instrumentation Facility X-ray Diffraction and Computed Tomography Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Liquid Chromotography Mass Spectrometry Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Mechanical Testing Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Rocky Mountain Environmental X-Ray Photoelectron Spectroscopy Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Time of Flight Secondary Ion Mass Spectrometry Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Electron and Scanning Probe Microscopy Core Facility is parent organization of: Colorado School of Mines Shared Instrumentation Facility Surface Characterization and Thin Film Deposition Core Facility |
SCR_022054 | 2026-08-12 10:52:40 | 1 | ||||||||||||
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ProSA web Resource Report Resource Website 100+ mentions |
ProSA web (RRID:SCR_021879) | software resource, data access protocol, web service | Interactive web service for recognition of errors in three dimensional structures of proteins. | structure errors recognition, proteins three dimensional structures, protein structure errors | FWF Austria ; University of Salzburg Austria |
PMID:17517781 | Free, Freely available | SCR_021879 | ProSA-web | 2026-08-12 10:52:25 | 474 | ||||||||
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Zeiss LabScope Resource Report Resource Website 1+ mentions |
Zeiss LabScope (RRID:SCR_021768) | data acquisition software, software application, data processing software, image acquisition software, software resource | Software tool for image acquisition using WiFi-enabled Zeiss microscopes. Compatible with Windows PCs and with Apple tablets., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Image acquisition, acquisition using WiFi enabled Zeiss microscopes, Zeiss | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_021768 | Zeiss LabScope software | 2026-08-12 10:52:37 | 4 | ||||||||||
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IonWizard Resource Report Resource Website 1+ mentions |
IonWizard (RRID:SCR_021764) | data processing software, data acquisition software, software resource, software application | Software tool to perform rapid fluorescence and morphometric real time, synchronous data acquisition with IonOptix systems, as well as polynomial fitting and analysis for myocyte research. Features include data trace averaging and filtering,composite images, and transient analysis. Integrates presentation of fluorescence traces and images, analog voltages, and cell length data under intuitive interface. Analyzes raw data by performing ratio, ion, or linear calibration calculations. | IONOPTIX LLC, polynomial fitting, analysis for myocyte research, data trace averaging and filtering, fluorescence, morphometry | Restricted | SCR_021764 | IonOptix IonWizard | 2026-08-12 10:52:37 | 8 | ||||||||||
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MFDp2 Resource Report Resource Website 1+ mentions |
MFDp2 (RRID:SCR_021885) | software resource, data access protocol, web service | Web tool for accurate prediction of disorder in proteins by fusion of disorder probabilities, content and profiles. | protein disorder, accurate prediction, disorder in proteins, disorder prediction, disorder probabilities | University of Alberta ; Natural Sciences and Engineering Research Council of Canada |
PMID:28516009 | Free, Freely available | SCR_021885 | Multilayered Fusion based Disorder predictor v. 2.00 | 2026-08-12 10:52:25 | 4 | ||||||||
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PrDOS Resource Report Resource Website 10+ mentions |
PrDOS (RRID:SCR_021886) | software resource, data access protocol, web service | Web server to predict natively disordered regions of protein chain from its amino acid sequence. Returns disorder probability of each residue as prediction results. | predict natively disordered regions, protein chain, protein chain prediction, disordered regions, disorder probability | SCR_021886 | 2026-08-12 10:52:46 | 39 |
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