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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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University of Toronto; Ontario; Canada Resource Report Resource Website 10+ mentions |
University of Toronto; Ontario; Canada (RRID:SCR_011733) | U of T | university | Public research university in Toronto, Ontario, Canada, located on the grounds that surround Queen's Park. |
uses: ShareLaTeX uses: Writefull is related to: Alzheimers Disease Genetics Consortium is related to: Beta Cell Biology Consortium is related to: ShareLaTeX is related to: UAMH Centre for Global Microfungal Biodiversity is related to: cryoSPARC is related to: Rtsne is related to: Rtsne is related to: Health Data Nexus is parent organization of: RNAcontext is parent organization of: VARiD is parent organization of: UCSCin is parent organization of: Bacteriome.org is parent organization of: Pathway Commons is parent organization of: Protein-Small Molecule Database is parent organization of: PHYCAA+: adaptive physiological noise correction for BOLD fMRI is parent organization of: I2D is parent organization of: International Symposium on Objective Measures in Auditory Implants is parent organization of: Savant is parent organization of: WebCite is parent organization of: Sunnybrook Tumour Bank is parent organization of: Canadian Virtual Brain Tumour Bank is parent organization of: PRISM - Pair Read Informed Split Mapper is parent organization of: Scarpa is parent organization of: iReckon is parent organization of: Synergizer is parent organization of: SHRiMP is parent organization of: GoFish is parent organization of: GeneMANIA is parent organization of: Roth Laboratory is parent organization of: PhenoTips is parent organization of: SNPdryad is parent organization of: COLT-Cancer is parent organization of: BAR is parent organization of: YeTFaSCo is parent organization of: FunSpec is parent organization of: PhenoM - Phenomics of yeast Mutants is parent organization of: 3D surgical atlases of the murine head is parent organization of: Nh3D: A Reference Dataset of Structures of Non-homologous Proteins is parent organization of: Network Analysis, Visualization and Graphing TORonto is parent organization of: Calmodulin Target Database is parent organization of: Frey Lab is parent organization of: SCRIPDB is parent organization of: YeastFunc is parent organization of: MoDIL is parent organization of: UHN Advanced Optical Microscopy Facility is parent organization of: Virtual brain is parent organization of: Structural Genomics Consortium is parent organization of: LIGand Attachment SITE Database is parent organization of: gCCA is parent organization of: Segway - a way to segment the genome is parent organization of: RNAcompete is parent organization of: TheCellMap is parent organization of: Biofactoid is parent organization of: BonZeb project is parent organization of: University of Toronto Advanced Instrumentation for Molecular Structure Mass Spectrometry Laboratory Core Facility is parent organization of: University of Toronto Centre for Immune Analytics Core Facility is parent organization of: University of Toronto Centre for Analysis of Genome Evolution and Function CAGEF Core Facility is parent organization of: University of Toronto Research and Innovation Core Facility |
grid.17063.33, ISNI:0000 0001 2157 2938, nlx_15536, Crossref funder ID:501100003579, Wikidata:Q180865 | https://ror.org/03dbr7087 | SCR_011733 | University of Toronto | 2026-08-15 11:24:36 | 17 | ||||||||
|
University of Trento; Trento; Italy Resource Report Resource Website 1+ mentions |
University of Trento; Trento; Italy (RRID:SCR_011734) | university | Italian university located in Trento and nearby Rovereto. It has been able to achieve considerable results in didactics, research, and international relations according to CENSIS and the Italian Ministry of Education. |
is parent organization of: Liquid Publications: Scientific Publications meet the Web is parent organization of: SEB3R |
grid.11696.39, nlx_56306, ISNI:0000 0004 1937 0351, Crossref funder ID:501100004004, Wikidata:Q930528 | https://ror.org/05trd4x28 | SCR_011734 | Universit� degli Studi di Trento | 2026-08-15 11:24:21 | 1 | |||||||||
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University of Waikato; Hamilton; New Zealand Resource Report Resource Website 1+ mentions |
University of Waikato; Hamilton; New Zealand (RRID:SCR_011745) | Waikato | university | Waikato University, is a comprehensive university in Hamilton, New Zealand. The university was established in 1964, and has an additional campus located in Tauranga. | is parent organization of: Weka | Wikidata:Q606140, Crossref funder ID:100010061, nlx_158432, grid.49481.30, ISNI:0000 0004 0408 3579 | https://ror.org/013fsnh78 | SCR_011745 | Te Whare Wnanga o Waikato, Waikato University, Te Whare Wananga o Waikato, University of Waikato | 2026-08-15 11:24:32 | 1 | ||||||||
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University of Warsaw; Warsaw; Poland Resource Report Resource Website 1+ mentions |
University of Warsaw; Warsaw; Poland (RRID:SCR_011747) | UW | university | University was established in 1816 and is the largest university in Poland. One of the top Polish universities. |
is parent organization of: GROTOAP is parent organization of: signalml.org is parent organization of: CERMINE is parent organization of: University of Warsaw Center of New Technologies Genomics Core Facility |
nlx_152513, Wikidata:Q144488, Crossref funder ID:501100006445, grid.12847.38, ISNI:0000 0004 1937 1290 | https://ror.org/039bjqg32 | SCR_011747 | University of Warsaw | 2026-08-15 11:24:21 | 1 | ||||||||
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University of Warwick; Coventry; United Kingdom Resource Report Resource Website 1+ mentions |
University of Warwick; Coventry; United Kingdom (RRID:SCR_011748) | Warwick | university | Public research university on the outskirts of Coventry between the West Midlands and Warwickshire, England. It was founded in 1965 as part of a government initiative to expand higher education. |
is related to: Pharma-Planta Consortium is parent organization of: IBMA toolbox is parent organization of: jobs.ac.uk is parent organization of: Wigwams is parent organization of: Statistical non-Parametric Mapping is parent organization of: Piirus is parent organization of: EnteroBase is parent organization of: Sandwich Estimator Toolbox |
grid.7372.1, ISNI:0000 0000 8809 1613, Wikidata:Q865528, nlx_144168, Crossref funder ID:501100000741 | https://ror.org/01a77tt86 | SCR_011748 | University of Warwick, Warwick University | 2026-08-15 11:24:32 | 3 | ||||||||
|
UTGB Toolkit Resource Report Resource Website 1+ mentions |
UTGB Toolkit (RRID:SCR_011797) | UTGB Toolkit | software resource | An open-source software for developing personalized genome browsers that work in web browsers. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Tokyo; Tokyo; Japan |
Open unspecified license | OMICS_00927, biotools:utgb_toolkit | https://bio.tools/utgb_toolkit | SCR_011797 | University of Tokyo Genome Browser | 2026-08-15 11:24:23 | 1 | ||||||
|
AdapterRemoval Resource Report Resource Website 500+ mentions |
AdapterRemoval (RRID:SCR_011834) | data processing software, software application, data analysis software, software resource, sequence analysis software | Software program to remove residual adapter sequences from next generation sequencing reads. Used for cleaning of next-generation sequencing reads. AdapterRemoval v2 introduces improvements in throughput, through use of single instruction, multiple data (SIMD; SSE1 and SSE2) instructions and multi-threading support; handles datasets containing reads or read-pairs with different adapters or adapter pairs; provides simultaneous demultiplexing and adapter trimming; has ability to reconstruct adapter sequences from paired-end reads for poorly documented data sets; provides native gzip and bzip2 support. | cleaning of next-generation sequencing reads, remove residual adapter sequences, adapter, sequence, residual, next generation sequencing reads, |
is listed by: OMICtools is listed by: Debian |
Danish National Research Foundation ; Lundbeck Foundation Grant ; Marie Curie International Outgoing Fellowship within the 7th European Community Framework Programme ; Danish Council for Independent Research |
PMID:22748135 PMID:26868221 DOI:10.1186/s13104-016-1900-2 |
Free, Available for download, Freely available | OMICS_01081 | https://sources.debian.org/src/adapterremoval/ | http://code.google.com/p/adapterremoval/, https://github.com/slindgreen/AdapterRemoval, https://sources.debian.org/src/adapterremoval/ | SCR_011834 | AdapterRemoval v2 | 2026-08-15 11:24:34 | 773 | ||||
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University of Tennessee Knoxville; Tennessee; USA Resource Report Resource Website 1+ mentions |
University of Tennessee Knoxville; Tennessee; USA (RRID:SCR_011714) | UT Knoxville, UTK | university | Public research university in Knoxville, Tennessee. |
has parent organization: University of Tennessee; Tennessee; USA is parent organization of: University of Tennessee Genome Science and Technology Graduate Program is parent organization of: MiST - Microbial Signal Transduction database is parent organization of: University of Tennessee Knoxville Biological Mass Spectrometry Core Facility |
grid.411461.7, Crossref funder ID:100008526, Wikidata:Q1150105, ISNI:0000 0001 2315 1184, nlx_149122 | https://ror.org/020f3ap87 | SCR_011714 | University of Tennessee Knoxville | 2026-08-15 11:24:36 | 3 | ||||||||
|
Btrim Resource Report Resource Website 50+ mentions |
Btrim (RRID:SCR_011836) | Btrim | software resource | A fast and lightweight software to trim adapters and low quality regions in reads from ultra high-throughput next-generation sequencing machines. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Yale School of Medicine; Connecticut; USA |
PMID:21651976 | biotools:btrim, OMICS_01083 | https://bio.tools/btrim | SCR_011836 | 2026-08-15 11:24:24 | 87 | |||||||
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QuorUM Resource Report Resource Website 10+ mentions |
QuorUM (RRID:SCR_011840) | QuorUM | software resource | Software tool as error corrector for Illumina reads. It is distributed and used with MaSuRCA, or it can be used independently. |
is listed by: OMICtools is listed by: Debian has parent organization: University of Maryland; Maryland; USA |
DOI:10.1371/journal.pone.0130821 | OMICS_01107 | https://sources.debian.org/src/quorum/ | SCR_011840 | 2026-08-15 11:24:35 | 32 | ||||||||
|
cutadapt Resource Report Resource Website 5000+ mentions |
cutadapt (RRID:SCR_011841) | cutadapt | software resource | Software tool that removes adapter sequences from DNA sequencing reads., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is required by: SL-quant works with: Trim Galore |
DOI:10.14806/ej.17.1.200 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01086, biotools:cutadapt | https://bio.tools/cutadapt | https://sources.debian.org/src/cutadapt/ | SCR_011841 | 2026-08-15 11:24:40 | 7088 | |||||
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University of Texas Health Science Center at San Antonio; Texas; USA Resource Report Resource Website 1+ mentions |
University of Texas Health Science Center at San Antonio; Texas; USA (RRID:SCR_011722) | UTHSCSA | institution | The University of Texas Health Science Center at San Antonio serves San Antonio and the 50,000 square-mile area of South Texas. It extends to campuses in the metropolitan border communities of Laredo and the Rio Grande Valley. More than 3,000 students a year train in an environment that involves more than 100 affiliated hospitals, clinics and health care facilities in South Texas. |
is related to: Clinical and Translational Science Awards Consortium is parent organization of: Talairach Daemon is parent organization of: Cognitive Paradigm Ontology is parent organization of: brainmap.org is parent organization of: University of Texas Health Science Center at San Antonio Department of Pharmacology is parent organization of: Mango is parent organization of: UT Health Science Center San Antonio School of Medicine; Texas; USA is parent organization of: Cancer Methylome System is parent organization of: Texas University Health Science Center at San Antonio Long School of Medicine Department of Cell Systems and Anatomy Optical Imaging Core Facility is parent organization of: UTHSCSA Biomolecular NMR Core Facility is parent organization of: UTHSCSA Center for Macromolecular Interactions is parent organization of: UTHSCSA Core for Advanced Translational Technologies is parent organization of: University of Texas Health Science Center at San Antonio Genome Sequencing Facility is parent organization of: UTHSCSA Flow Cytometry Core Facility is parent organization of: UTHSCSA Genomics Core is parent organization of: UTHSCSA Mass Spectrometry Laboratory is parent organization of: UTHSCSA MicroCT Core Laboratory is parent organization of: UTHSCSA X-ray Crystallography Core Laboratory is parent organization of: UTHSCSA Metabolomics Core Laboratory Mass Spectrometry is parent organization of: UTHSCSA Nucleic Acids Core Facility is parent organization of: Strong Star is parent organization of: UTHSCSA ImageTool |
Crossref funder ID: 100008635, nlx_99285, ISNI: 0000 0001 0629 5880, Wikidata: Q4005868, grid.267309.9 | https://ror.org/02f6dcw23 | SCR_011722 | UT Health Science Center at San Antonio, University of Texas Health Science Center at San Antonio, UT Health Science Center San Antonio, University of Texas Health Science Center San Antonio | 2026-08-15 11:24:36 | 2 | ||||||||
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University of Texas Southwestern Medical Center; Texas; USA Resource Report Resource Website 10+ mentions |
University of Texas Southwestern Medical Center; Texas; USA (RRID:SCR_011724) | UT Southwestern, UTSW | institution | Public academic health science center in Dallas, Texas. |
is related to: Alzheimers Disease Genetics Consortium is related to: Beta Cell Biology Consortium is related to: Clinical and Translational Science Awards Consortium has parent organization: University of Texas System; Texas; USA is parent organization of: Southwestern NMR Center for In Vivo Metabolism is parent organization of: Acute Liver Failure Study Group is parent organization of: Transplant Services Center is parent organization of: UT Southwestern Medical Center Department of Pathology is parent organization of: PIPE-CLIP is parent organization of: North Texas Traumatic Brain Injury Model System is parent organization of: eTBlast is parent organization of: University of Texas Southwestern Medical Center - Alzheimer's Disease Center is parent organization of: UT Southwestern Protein Chemistry Technology Core is parent organization of: University of Texas Southwestern Electron Microscopy Core Facility is parent organization of: UT Southwestern CRI Flow Cytometry Shared Facility is parent organization of: University of Texas Southwestern Genomics and Microarray Core is parent organization of: University of Texas Southwestern Medical Center at Dallas Labs and Facilities is parent organization of: Guthy-Jackson Repository for Neuromyelitis Optica is parent organization of: Influenza Research Database (IRD) is parent organization of: CPFP is parent organization of: Virus Pathogen Resource (ViPR) is parent organization of: Sperm Stem Cell Libraries for Biological Research is parent organization of: VDJ Server is parent organization of: GUSSI is parent organization of: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center Cell Biology and Imaging Core is parent organization of: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center Clinical and Translational Core is parent organization of: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center is parent organization of: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center Animal Models Core is parent organization of: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center Physiology Core is parent organization of: University of Texas Southwestern Medical Center Neuro Models Core Facility is parent organization of: University of Texas Southwestern Medical Center Quantitative Light Microscopy Core Facility is parent organization of: University of Texas Southwestern Medical Center Dallas Metabolic Phenotyping Core Facility is parent organization of: University of Texas Southwestern Medical Center Dallas Histo Pathology Core Facility is parent organization of: University of Texas Southwestern Medical Center Rodent Behavior Core Facility |
Wikidata: Q2725999, nlx_27973, grid.267313.2, ISNI: 0000 0000 9482 7121, Crossref funder ID: 100007914 | https://ror.org/05byvp690 | SCR_011724 | University of Texas Southwestern Medical Center, University of Texas Southwestern, UT Southwestern Medical Center | 2026-08-15 11:24:21 | 12 | ||||||||
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Explicet Resource Report Resource Website 50+ mentions |
Explicet (RRID:SCR_011937) | Explicet | software resource | Graphical user interface software for metadata-driven management, analysis, and visualization of microbiome data. | is listed by: OMICtools | OMICS_01497 | SCR_011937 | 2026-08-15 11:24:27 | 60 | ||||||||||
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MetaSee Resource Report Resource Website 1+ mentions |
MetaSee (RRID:SCR_011938) | MetaSee | software resource | An online toolbox for metagenomic data visualization. | is listed by: OMICtools | OMICS_01499 | SCR_011938 | 2026-08-15 11:24:38 | 3 | ||||||||||
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SynTView Resource Report Resource Website 1+ mentions |
SynTView (RRID:SCR_011939) | SynTView | software resource | An interactive multi-view genome browser for next-generation comparative microorganism genomics. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
OMICS_01500, biotools:syntview | https://bio.tools/syntview | SCR_011939 | 2026-08-15 11:24:43 | 7 | ||||||||
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Glimmer Resource Report Resource Website 500+ mentions |
Glimmer (RRID:SCR_011931) | Glimmer | production service resource, data analysis service, software resource, service resource, analysis service resource | A software system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses. | microbial, gene, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite is related to: Glimmer-MG is related to: GlimmerHMM has parent organization: Johns Hopkins University; Maryland; USA |
DOI:10.1093/nar/26.2.544 | Open unspecified license, OSI certified | OMICS_01486, biotools:glimmer | https://bio.tools/glimmer, https://sources.debian.org/src/tigr-glimmer/ | SCR_011931 | Glimmer - Microbial Gene-Finding System | 2026-08-15 11:24:37 | 687 | |||||
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NeSSM Resource Report Resource Website 10+ mentions |
NeSSM (RRID:SCR_011941) | NeSSM | software resource | A Next-Generation Sequencing Simulator for Metagenomics. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
OMICS_01510, biotools:nessm | https://bio.tools/nessm | SCR_011941 | 2026-08-15 11:24:38 | 11 | ||||||||
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MetaVelvet Resource Report Resource Website 50+ mentions |
MetaVelvet (RRID:SCR_011915) | MetaVelvet | software resource | Software for a short read de novo metagenome assembly created by modifying and extending a single-genome and de Bruijn-graph based assembler, Velvet. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
OMICS_01427, biotools:metavelvet | https://bio.tools/metavelvet | SCR_011915 | MetaVelvet: a short read assember for metagenomics | 2026-08-15 11:24:42 | 78 | |||||||
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Newbler Resource Report Resource Website 1000+ mentions |
Newbler (RRID:SCR_011916) | Newbler | software resource | A software package for de novo DNA sequence assembly. |
is listed by: OMICtools has parent organization: University of Arizona; Arizona; USA |
OMICS_01428 | SCR_011916 | 2026-08-15 11:24:26 | 1343 |
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