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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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HaTSPiL Resource Report Resource Website 1+ mentions |
HaTSPiL (RRID:SCR_017059) | sequence analysis software, data processing software, data analysis software, software application, software resource | Software Python tool for high throughput sequencing analysis, focused on high reliability, modularity and customisability. | next, generation, sequencing, pipeline, metadata, analysis, mutation, barcoding, customisability, modularity, bio.tools |
uses: Python Programming Language is listed by: Debian is listed by: bio.tools has parent organization: Italian Institute for Genomic Medicine; Turin; Italy |
Free, Available for download, Freely available | biotools:HatSPiL | https://bio.tools/HaTSPiL | SCR_017059 | 2026-02-14 02:03:13 | 1 | ||||||||
|
COsleep Resource Report Resource Website 1+ mentions |
COsleep (RRID:SCR_017053) | cosleep | data analysis software, software resource, data processing software, software application | Software Python tool for sleep EEG analysis. Used for Closed and Open loop in Slow Ocillations, Sleep Stimulation in Auditory or Recording in full PSG using OpenBCI Cyton. | SpiSOP, OpenBCI, sleep, EEG, analysis, electroencephalogram, electrical, activity, brain, wave, pattern, disorder |
is related to: SpiSOP is related to: Python Programming Language |
Free, Available for download, Freely available | http://www.spisop.org/cosleep | SCR_017053 | Closed- and Open-loop Sleep Stimulations with Auditory Stimuli, Closed and Open loop sleep | 2026-02-14 02:03:13 | 1 | |||||||
|
affydata Resource Report Resource Website |
affydata (RRID:SCR_016976) | AffyData | data processing software, data or information resource, data analysis software, software application, software resource | Software R package for analysis of Affymetrix Data. Contains samples data files of a large size. | analysis, Affymetrix, data, large, dataset, oligonucleotide, array |
is listed by: Bioconductor is related to: affy is related to: R Project for Statistical Computing |
Free, Available for download, Freely available | SCR_016976 | affydata, Affymetrix Data, Affymetrix Data for Demonstration Purpose | 2026-02-14 02:03:07 | 0 | ||||||||
|
CCPN Analysis Resource Report Resource Website 10+ mentions |
CCPN Analysis (RRID:SCR_016984) | CcpNmr Analysis | data visualization software, data processing software, data analysis software, software application, software resource | Software package for interactive NMR spectrum visualization, resonance assignment and data analysis. Graphical elements allow to enter information and to view status of data and library functions manipulate the CCPN data model objects to record the scientific information. Software is cross platform and works on Linux, Mac OSX, Windows and Unix. | interactive, NMR, specturm, visualization, resonance, data, analysis |
is related to: University of Cambridge; Cambridge; United Kingdom is related to: Python Programming Language is related to: Collaborative Computing Project for NMR works with: CCPN Data Model works with: CCPN Data Model |
Deutsche Forschungsgemeinschaft ; Biotechnology and Biological Sciences Research Council (UK) |
PMID:21953355 PMID:15815974 |
Public, Available for download, Free of charge for non profit institutions, Tutorial available | SCR_016984 | CcpNmr Analysis, CCPN Analysis v2, CCPN Analysis v3 | 2026-02-14 02:03:12 | 47 | ||||||
|
ImmuneDB Resource Report Resource Website 1+ mentions |
ImmuneDB (RRID:SCR_017125) | data analysis service, analysis service resource, data or information resource, production service resource, service resource, database | Software system for storing and analyzing high throughput B and T cell immune receptor sequencing data. Comprised of web interface and of Python analysis tools to process raw reads for gene usage, infer clones, aggregate data, and run downstream analyses, or in conjunction with other AIRR tools using its import and export features. | collect, store, analysis, B cell, T cell, immune, receptor, sequencing, data, process, raw, read | is used by: AIRR Data Commons | NIAID P01 AI106697; NIAID P30 AI0450080; NIDDK UC4 DK112217; NCI P30 CA016520 |
PMID:30298069 | Free, Available for download, Freely available | https://github.com/arosenfeld/immunedb | SCR_017125 | 2026-02-14 02:03:21 | 8 | |||||||
|
SwiftOrtho Resource Report Resource Website 1+ mentions |
SwiftOrtho (RRID:SCR_017122) | data analysis software, software resource, data processing software, software application | Software tool for orthology analysis to identify orthologs, paralogs and co orthologs for genomes. Used to perform homology classification across genomes of different species in large genomic datasets. | orthology, analysis, identify, ortholog, paralog, co ortholog, genome, homology, different, species, large, dataset, bio.tools |
uses: Python Programming Language is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
DOI:10.1101/543223 | Free, Available for download, Freely available | OMICS_30890, biotools:SwiftOrtho | https://bio.tools/SwiftOrtho | SCR_017122 | 2026-02-14 02:03:23 | 4 | |||||||
|
ClustVis Resource Report Resource Website 500+ mentions Issue |
ClustVis (RRID:SCR_017133) | web service, data analysis service, analysis service resource, production service resource, service resource, data access protocol, software resource | Web user interface for visualizing clustering of multivariate data. Web server allows users to upload their own data and create Principal Component Analysis plots and heatmaps. | visualizing, clustering, multivariate, data, principal, component, analysis, plot, heatmap, bio.tools |
uses: Shiny uses: ggplot2 uses: pheatmap uses: RColorBrewer uses: FactoMineR is listed by: OMICtools is listed by: bio.tools is listed by: Debian is related to: R Project for Statistical Computing has parent organization: University of Tartu; Tartu; Estonia |
Innovative Medicines Initiative Joint Undertaking ; European Union Seventh Framework Programme ; European Federation of Pharmaceutical Industries and Associations ; European Regional Development Fund ; Estonian Research Council ; European Commission ; EFPIA |
PMID:25969447 | biotools:clustvis, OMICS_08539 | https://github.com/taunometsalu/ClustVis https://bio.tools/clustvis |
SCR_017133 | 2026-02-14 02:03:24 | 798 | |||||||
|
CFX Manager Resource Report Resource Website 100+ mentions |
CFX Manager (RRID:SCR_017251) | data analysis software, software resource, data processing software, software application | Software tool to analyze real-time PCR data and run PCR system in software controlled mode., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | RT PCR, real time PCR, data, analysis, BioRad | is listed by: SoftCite | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_017251 | CFX Manager software | 2026-02-14 02:03:17 | 489 | |||||||||
|
University of North Carolina Charlotte Bioinformatics Services Division Resource Report Resource Website |
University of North Carolina Charlotte Bioinformatics Services Division (RRID:SCR_017182) | BiSD, UNC Charlotte BiSD | data analysis service, core facility, analysis service resource, data or information resource, production service resource, service resource, access service resource | Core to assist with analyzing and interpreting data produced by genomic technologies. | bioinformatics, analysis, data, genomic | Open | SCR_017182 | , Charlotte, University of North Carolina, BiSD, Bioinformatics Services Division, UNC | 2026-02-14 02:03:24 | 0 | |||||||||
|
City of Hope National Medical Center Integrative Genomics and Bioinformatics Core Facility Resource Report Resource Website 1+ mentions |
City of Hope National Medical Center Integrative Genomics and Bioinformatics Core Facility (RRID:SCR_017188) | IGBC | data analysis service, core facility, analysis service resource, data or information resource, production service resource, service resource, access service resource | Core provides genomic and bioinformatics services to City of Hope Comprehensive Cancer Center (COHCCC) investigators. | bioinformatics, genomic, data, analysis, service, next, sequencing | Restricted | SCR_017188 | , City of Hope, Integrative Genomics and Bioinformatics Core, Bioinformatics Core Facility, National Medical Center, IGBC | 2026-02-14 02:03:21 | 1 | |||||||||
|
Harvard School of Public Health Microbiome Analysis Core Facility Resource Report Resource Website |
Harvard School of Public Health Microbiome Analysis Core Facility (RRID:SCR_017187) | HSPH Microbiome Analysis Core | data analysis service, core facility, analysis service resource, data or information resource, production service resource, service resource, access service resource | Core assists with consultation for microbiome project development, provides validated meta omic analysis of microbial community data, and supports fully collaborative grant funded investigations. | bioinformatics, consulting, microbiome, omic, data, analysis | has parent organization: Harvard University; Cambridge; United States | Open | SCR_017187 | , HSPH, Harvard School of Public Health, Microbiome Analysis, facility, Core | 2026-02-14 02:03:09 | 0 | ||||||||
|
SeQuiLa Resource Report Resource Website 1+ mentions |
SeQuiLa (RRID:SCR_017220) | data analysis software, software resource, data processing software, software application | Software tool for genomic intervals querying and processing built on top of Apache Spark. Elastic, fast and scalable SQL oriented solution for processing and querying genomic intervals. | genomic, intervals, querying, processing, Apache, Spark, SQL, analysis, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: Warsaw University of Technology; Warsaw; Poland |
National Science Center ; Polish budget funds for science |
PMID:30428005 | Free, Available for download, Freely available | biotools:SeQuiLa-cov | http://biodatageeks.org/sequila/ https://bio.tools/SeQuiLa-cov |
SCR_017220 | 2026-02-14 02:03:25 | 1 | ||||||
|
Computational Suite for Bioinformaticians and Biologists Resource Report Resource Website 1+ mentions |
Computational Suite for Bioinformaticians and Biologists (RRID:SCR_017234) | CSBB | data analysis software, software resource, data processing software, software application | Software package for analysis of sequencing data. Command line based bioinformatics suite to analyze biological data acquired through biological experiments. | analysis, sequencing, data, command, line, expression, normalization, convert | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_17554 | https://github.com/csbbcompbio | SCR_017234 | CSBB-v3.0, CSBB-v1.0, CSBB-v2.0, Computational Suite for Bioinformaticians and Biologists | 2026-02-14 02:03:22 | 6 | ||||||
|
SCANCO Medical microCT 100 system Resource Report Resource Website 1+ mentions |
SCANCO Medical microCT 100 system (RRID:SCR_017119) | instrument resource | Micro Computed Tomography 100 scanner for 3D imaging of specimens in vitro supplied with software for scanning, 3D analysis, visualization, image management and data import and export by SCANCO Medical AG. | SCANCO, micro, CT, computed, tomography, scanner, 3D, imaging, speciment, in vitro, analysis, visualization, image, data | Available for purchase | https://www.scanco.ch/images/Brochures/microct-v16.pdf | http://www.scanco.ch/en/systems-solutions/specimen/microct100.html | SCR_017119 | 2026-02-14 02:03:21 | 7 | |||||||||
|
VETA Resource Report Resource Website 1+ mentions |
VETA (RRID:SCR_017201) | data visualization software, data processing software, data acquisition software, data analysis software, software application, software resource | Software suite of functions for EMG data visualization and processing. Open source Matlab toolbox for electromyography combined with transcranial magnetic stimulation. MATLAB toolbox for the collection, analysis, and visualization of EMG and TMS. | Electromyography, transcranial, magnetic, stimulation, analysis, EMG, TMS, data, bio.tools |
is listed by: Debian is listed by: bio.tools |
NCATS TR002370 | PMID:31572120 | Free, Available for download, Freely available | BioTools:VETA, biotools:VEtA | https://github.com/greenhouselab/Veta/tree/master/data https://bio.tools/VETA https://bio.tools/VETA https://bio.tools/VETA |
SCR_017201 | 2026-02-14 02:03:09 | 2 | ||||||
|
Agilent G2565CA Microarray Scanner Resource Report Resource Website 1+ mentions |
Agilent G2565CA Microarray Scanner (RRID:SCR_017206) | instrument resource | Microarray Scanner is part of microarray analysis solution from Agilent Technologies. Laser induced fluorescence scanner designed to read microarrays printed on standard slides. Measures fluorescence intensity of labeled sample nucleic acid bound to microarrays. | microarray, analysis, Agilent, scanner, slide, fluorescence, intensity, nucleic, acid, sample | Available for purchase | SCR_019384, Model_Number_2565CA | https://www.agilent.com/cs/library/usermanuals/Public/G2505-90019_ScannerC_User.pdf | https://www.chem-agilent.com/contents.php?id=1000947 | SCR_017206 | 2026-02-14 02:03:22 | 1 | ||||||||
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Rice_HxD_Recovery_Metabolomics Resource Report Resource Website 1+ mentions |
Rice_HxD_Recovery_Metabolomics (RRID:SCR_017204) | data visualization software, data processing software, data analysis software, source code, software application, software resource | Software tool as source code used in analysis of GC MS data from rice samples. Workflow for statistical analysis of GC MS data from field grown rice collected during rewatering after exposure to combined drought and heat stress. | analysis, GC-MS, data, rice, sample, statistics, workflow | Free, Available for download, Freely available | SCR_017204 | 2026-02-14 02:03:24 | 1 | |||||||||||
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University of Cambridge Department of Plant Sciences Bioinformatics Core Facility Resource Report Resource Website |
University of Cambridge Department of Plant Sciences Bioinformatics Core Facility (RRID:SCR_017164) | University of Cambridge Bioinformatics Core Facility | data analysis service, core facility, analysis service resource, production service resource, service resource, access service resource | Core provides assistance in data analysis to support members of Plant Sciences. | bioinformatics, data, analysis, service | has parent organization: University of Cambridge; Cambridge; United Kingdom | SCR_017164 | Department of Plant Sciences, Core Facility, Bioinformatics, University of Cambridge | 2026-02-14 02:03:15 | 0 | |||||||||
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UCSF Gladstone Institutes Bioinformatics Core Facility Resource Report Resource Website |
UCSF Gladstone Institutes Bioinformatics Core Facility (RRID:SCR_017178) | UCSF Gladstone Institutes Bioinformatics Core | training service resource, data analysis service, core facility, analysis service resource, data or information resource, production service resource, service resource, software resource, access service resource | Core provides consulting services, sequencing, data analysis, and programming assistance. Used for Experimental Design and Power Analysis Consultation, RNA-seq, ChIP-seq, ATAC-seq analysis, Statistics consulting, Variant calling, Data normalization across multiple projects, General programming, Custom Figures for publication, tutorials for learning common software tools. | Bioinformatics, consulting, data, analysis, sequencing, RNA-seq, DNA-seq, ChIP-seq, ATAC-seq, statistics, variant, calling, normalization | Open | SCR_017178 | Bioinformatics Core, Gladstone Core Services, University California San Fransisco, UCSF, Gladstone Institutes | 2026-02-14 02:03:24 | 0 | |||||||||
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RNAstructure Resource Report Resource Website 10+ mentions |
RNAstructure (RRID:SCR_017216) | web service, analysis service resource, production service resource, service resource, software application, data access protocol, software resource, simulation software | Web server for RNA and DNA secondary structure prediction and analysis. Software package as RNA folding prediction program. | RNA, DNA, secondary, structure, prediction, analysis |
is listed by: SoftCite has parent organization: University of Rochester; New York; USA |
NIGMS R01 GM076485 | PMID:23620284 | Free, Freely available | SCR_017216 | 2026-02-14 02:03:25 | 42 |
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