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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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R-pbutils Resource Report Resource Website |
R-pbutils (RRID:SCR_002995) | software resource | An R software package providing plotting and convenience functions. | software package, r | is listed by: OMICtools | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_05140 | SCR_002995 | 2026-08-29 11:21:19 | 0 | |||||||||
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DIALIGN Resource Report Resource Website 10+ mentions |
DIALIGN (RRID:SCR_003041) | DIALIGN | analysis service resource, data access protocol, data analysis service, production service resource, service resource, software resource, web service | Tool for multiple sequence alignment using various sources of external information that is particularly useful to detect local homologies in sequences with low overall similarity. While standard alignment methods rely on comparing single residues and imposing gap penalties, DIALIGN constructs pairwise and multiple alignments by comparing entire segments of the sequences. No gap penalty is used. This approach can be used for both global and local alignment, but it is particularly successful in situations where sequences share only local homologies. Several versions of DIALIGN are available online at GOBICS, http://dialign.gobics.de/ | dna, protein, sequence alignment, sequence, alignment, fasta, genome, genomic sequence, homology, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite has parent organization: Bielefeld University; North Rhine-Westphalia; Germany |
PMID:15215344 PMID:23620293 DOI:10.1186/1748-7188-3-6 |
Free, Available for download, Freely available | nif-0000-30417, OMICS_24606, OMICS_00973, biotools:dialign-tx | http://dialign.gobics.de/, https://bio.tools/dialign-tx | https://sources.debian.org/src/dialign-tx/ | SCR_003041 | DIALIGN at GOBICS | 2026-08-29 11:21:40 | 44 | ||||
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Dana-Farber Cancer Institute Resource Report Resource Website 1+ mentions |
Dana-Farber Cancer Institute (RRID:SCR_003040) | DFCI | institution |
Cancer institute that provides expert, compassionate care to children and adults with cancer while advancing the understanding, diagnosis, treatment, cure, and prevention of cancer and related diseases. As an affiliate of Harvard Medical School and a Comprehensive Cancer Center designated by the National Cancer Institute, the Institute also provides training for new generations of physicians and scientists, designs programs that promote public health particularly among high-risk and underserved populations, and disseminates innovative patient therapies and scientific discoveries to their target community across the United States and throughout the world. |
child, adult human, pediatric, young human |
has parent organization: Harvard Medical School; Massachusetts; USA is parent organization of: Spotfinder is parent organization of: TM4 Microarray Software Suite - TIGR MultiExperiment Viewer is parent organization of: Gene Index Project is parent organization of: CistromeMap is parent organization of: BINOCh is parent organization of: Dana Farber Tissue Bank is parent organization of: CistromeFinder is parent organization of: TM4 is parent organization of: WorfDB is parent organization of: Predictive Networks is parent organization of: RamiGO is parent organization of: DFCI Animal Resources Facility is parent organization of: DFCI Biohazard Containment Core Facility is parent organization of: DFCI Biospecimen Repository Core Facility is parent organization of: DFCI Blais Proteomics Center is parent organization of: DFCI Clinical Research Laboratory is parent organization of: DFCI Survey and Data Management Core is parent organization of: DFCI Flow Cytometry Core Facility is parent organization of: DFCI Medical Arts Core Facility is parent organization of: DFCI Microarray Core Facility is parent organization of: Dana-Farber Cancer Institute Molecular Biology Core Facility is parent organization of: DFCI RNA Interference Screening Facility is parent organization of: DFCI Shannon McCormack Advanced Molecular Diagnostics Laboratory is parent organization of: MAnorm is parent organization of: NPS is parent organization of: DFCI Confocal and Light Microscopy Core Facility is parent organization of: DFCI Monoclonal Antibody Core Facility is parent organization of: Dana-Farber Cancer Institute Labs and Facilities is parent organization of: DFCI Center for Cancer Computational Biology is parent organization of: GeneSigDB is parent organization of: MACS is parent organization of: DGAP |
Cancer | NCI ; Jimmy Fund |
Free, Freely available | Crossref funder ID: 100007886, grid.65499.37, Wikidata: Q1159198, ISNI: 0000 0001 2106 9910, nif-0000-30432 | https://ror.org/02jzgtq86 | SCR_003040 | Dana Farber Cancer Institute, Dana-Farber | 2026-08-29 11:21:20 | 6 | ||||
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BEBaC Resource Report Resource Website |
BEBaC (RRID:SCR_000621) | BEBaC | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software for Bayesian estimation of bacterial communities. | linux, bayesian |
is listed by: OMICtools has parent organization: University of Helsinki; Helsinki; Finland |
PMID:22406836 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01440 | SCR_000621 | Bayesian estimation of bacterial communities | 2026-08-29 11:20:43 | 0 | ||||||
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Genboree Discovery System Resource Report Resource Website 10+ mentions |
Genboree Discovery System (RRID:SCR_000747) | Genboree | data or information resource, data processing software, database, software application, software resource | A software application and database viewing system for genomic research, more specifically formulti-genome comparison and pattern discovery via genome self-comparison. Data are available for a range of species including Human Chr3, Human Chr12, Sea Urchin, Tribolium, and cow. The Genboree Discovery System is the largest software system developed at the bioinformatics laboratory at Baylor in close collaboration with the Human Genome Sequencing Center. Genboree is a turnkey software system for genomic research. Genboree is hosted on the Internet and, as of early 2007, the number of registered users exceeds 600. While it can be configured to support almost any genome-centric discovery process, a number of configurations already exist for specific applications. Current focus is on enabling studies of genome variation, including array CGH studies, PCR-based resequencing, genome resequencing using comparative sequence assembly, genome remapping using paired-end tags and sequences, genome analysis and annotation, multi-genome comparison and pattern discovery via genome self-comparison. Genboree database and visualization settings, tools, and user roles are configurable to fit the needs of specific discovery processes. Private permanent project-specific databases can be accessed in a controlled way by collaborators via the Internet. Project-specific data is integrated with relevant data from public sources such as genome browsers and genomic databases. Data processing tools are integrated using a plug-in model. Genboree is extensible via flexible data-exchange formats to accommodate project specific tools and processing steps. Our Positional Hashing method, implemented in the Pash program, enables extremely fast and accurate sequence comparison and pattern discovery by employing low-level parallelism. Pash enables fast and sensitive detection of orthologous regions across mammalian genomes, and fast anchoring of hundreds of millions of short sequences produced by next-generation sequencing technologies. We are further developing the Pash program and employing it in the context of various discovery pipelines. Our laboratory participates in the pilot stage of the TCGA (The Cancer Genome Atlas) project. We aim to develop comprehensive, rapid, and economical methods for detecting recurrent chromosomal aberrations in cancer using next-generation sequencing technologies. The methods will allow detection of recurrent chromosomal aberrations in hundreds of small ( | genome, genomic, next generation sequencing |
is related to: Spark has parent organization: Baylor University; Texas; USA |
nif-0000-08906 | SCR_000747 | Genboree Discovery System | 2026-08-29 11:20:30 | 11 | ||||||||
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FlipFlop Resource Report Resource Website |
FlipFlop (RRID:SCR_000625) | software resource | Software that discovers which isoforms of a gene are expressed in a given sample together with their abundances, based on RNA-Seq read data. | standalone software, unix/linux, mac os x, windows, r, rna-seq, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Bioconductor |
PMID:24813214 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_04028, biotools:flipflop | https://bio.tools/flipflop | SCR_000625 | flipflop - Fast lasso-based isoform prediction as a flow problem | 2026-08-29 11:20:33 | 0 | ||||||
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Wnt homepage Resource Report Resource Website 10+ mentions |
Wnt homepage (RRID:SCR_000662) | Wnt homepage | data or information resource, portal, topical portal | A resource for members of the Wnt community, providing information on progress in the field, maps on signaling pathways, and methods. The page on reagents lists many resources generously made available to and by the Wnt community. Wnt signaling is discussed in many reviews and in a recent book. There are usually several Wnt meetings per year. | wnt signaling, wnt, wnt protein, wnt pathway, signaling, pathway, method, protein, reagent, bibliography | has parent organization: Stanford University; Stanford; California | Cancer | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_156863 | SCR_000662 | the Wnt homepage | 2026-08-29 11:20:34 | 13 | ||||||
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Drugs.com Resource Report Resource Website 10+ mentions |
Drugs.com (RRID:SCR_000656) | community building portal, data or information resource, portal, topical portal | The Drugs.com mission is to be the Internets most trusted resource for drug and related health information. We will achieve this aim by presenting independent, objective, comprehensive and up-to-date information in a clear and concise format for both consumers and healthcare professionals. Their goal is to provide clear information about drugs sold in the USA, at a level everyone can comprehend. For consumers, we provide product information in non-technical language. Health professionals will find what they need in the FDA Product Label Professional Information database. The Care Guide provides information about the treatment of common illnesses and injuries. The Drug Interactions checker details drug-drug interaction mechanisms, severity and management, and also outlines drug-food interactions. Drugs.com is NOT an online pharmacy and does not condone the sale of prescription medicines over the Internet without a prescription. Drugs.com simply provides a free drug-information service to help you better understand how medicines work: their uses, side effects and potential to interact with other medicines. For information on purchasing prescription medicines online please visit the FDAs Buying Prescription Medicine Online: A Consumer Safety Guide. Drugs.com medical dictionary is powered by Stedmans. Since 1911, Stedmans Medical Dictionary has been the medical professions most trusted source for medical definitions. A complete medical terms dictionary, Steadmans Electronic Medical Dictionary contains over 107,000 medical terms taken directly from Stedmans Medical Dictionary, 28th Edition. Most search engines cover the entire Internet, and searches on these engines may produce many results that are not specific to your drug question. On Drugs.com, you can search by medical condition or by drug, and get the answer you need right away. Searches by drug can be made using the brand name or the generic name of the drug. Searches by medical condition will return a list of medications used to treat that condition. Sponsors: The Drugs.com drug information service is supported by donations and revenue from site advertisers. The Drugs.com staff endeavor to source ads that are medically or community-service oriented. All ads must be appropriate for all-age family viewing, and we screen banner ads for family-appropriate content before the ads go live. | drug, drug and drug design databases, food, condition, dictionary, health, health care, independent, information, interaction, management, mechanism, medical, medicine, objective, pharmacy, product, FASEB list | nif-0000-21133 | SCR_000656 | Drugs.com | 2026-08-29 11:20:33 | 40 | ||||||||||
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GONUTS Resource Report Resource Website 1+ mentions |
GONUTS (RRID:SCR_000653) | GONUTS | data or information resource, database, narrative resource, wiki | A wiki where users of the Gene Ontology can contribute and view notes about how specific GO terms are used. GONUTS can also be used as a GO term browser, or to search for GO annotations of specific genes from included organisms. The rationale for this wiki is based on helping new users of the gene ontology understand and use it. The GONUTS wiki is not an official product of the the Gene Ontology consortium. The GO consortium has a public wiki at their website, http://wiki.geneontology.org/. Maintaining the ontology involves many decisions to carefully choose terms and relationships. These decisions are currently made at GO meetings and via online discussion using the GO mailing lists and the Sourceforge curator request tracker. However, it is difficult for someone starting to use GO to understand these decisions. Some insight can be obtained by mining the tracker, the listservs and the minutes of GO meetings, but this is difficult, as these discussions are often dispersed and sometimes don't contain the GO accessions in the relevant messages. Wikis provide a way to create collaboratively written documentation for each GO term to explain how it should be used, how to satisfy the true path requirement, and whether an annotation should be placed at a different level. In addition, the wiki pages provide a discussion space, where users can post questions and discuss possible changes to the ontology. GONUTS is currently set up so anyone can view or search, but only registered users can edit or add pages. Currently registered users can create new users, and we are working to add at least one registered user for each participating database (So far we have registered users at EcoliHub, EcoCyc, GOA, BeeBase, SGD, dictyBase, FlyBase, WormBase, TAIR, Rat Genome Database, ZFIN, MGI, UCL and AgBase... | ontology or annotation browser, ontology or annotation search engine, ontology or annotation editor, protein |
is listed by: Gene Ontology Tools is listed by: OMICtools is related to: Gene Ontology has parent organization: EcoliHub |
NIGMS 1U24 GM077905-01; NIGMS U24 GM088849 |
PMID:22110029 | Free for academic use, The community can contribute to this resource | OMICS_02268, nlx_30164 | SCR_000653 | Gene Ontology Normal Usage Tracking System, GONUTS wiki | 2026-08-29 11:20:44 | 1 | |||||
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Australian Wool Innovation Limited Resource Report Resource Website |
Australian Wool Innovation Limited (RRID:SCR_000775) | commercial organization | Company focused on animal welfare and pest prevention in the wool industry. | wool, innovation, animal, health, welfare, prevention, parasite, science, resource, weed, pest, feral predator, breeding | nif-0000-30047 | http://www.wool.com.au/LivePage.aspx?pageId=116 | SCR_000775 | AWI | 2026-08-29 11:20:36 | 0 | |||||||||
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Pediatric Brain Tumor Consortium Resource Report Resource Website 1+ mentions |
Pediatric Brain Tumor Consortium (RRID:SCR_000658) | PBTC | consortium, data or information resource, organization portal, portal | The PEDIATRIC BRAIN TUMOR CONSORTIUM (PBTC) is a multidisciplinary cooperative research organization devoted to the study of correlative tumor biology and new therapies for primary CNS tumors of childhood. PBTC's mission is to contribute rapidly and effectively to the understanding and cure of these tumors through the conduct of multi-center, multidisciplinary, innovative studies with designs and analyses based on uniformly high quality statistical science. While the primary mission of the PBTC is to identify through laboratory and clinical science superior treatment strategies for children with brain cancers, the PBTC investigators recognize their profound responsibility to meet the special needs of the children and families as they face this enormous challenge. Members are committed to working within their institutions and communities to improve support services and follow up care for these patients and their families. The PBTC's primary objective is to rapidly conduct novel phase I and II clinical evaluations of new therapeutic drugs, new biological therapies, treatment delivery technologies and radiation treatment strategies in children from infancy to 21 years of age with primary central nervous system (CNS) tumors. A second objective is to characterize reliable markers and predictors (direct or surrogate) of brain tumors' responses to new therapies. The Consortium conducts research on brain tumor specimens in the laboratory to further understand the biology of pediatric brain tumors. A third objective is to develop and coordinate innovative neuro-imaging techniques. Through the PBTC's Neuro-Imaging Center, formed in May 2000, research to evaluate new treatment response criteria and neuro-imaging methods to understand regional brain effects is in progress. These imaging techniques can also advance understanding of significant neuro-toxicity in a developing child's central nervous system. The Neuro-Imaging Center is supported in part by private sources - grants from foundations and non-profit organizations - in addition to the NCI. As an NCI funded Consortium, the Pediatric Brain Tumor Consortium (PBTC) is required to make research data available to other investigators for use in research projects. An investigator who wishes to use individual patient data from one or more of the Consortium's completed and published studies must submit in writing a description of the research project, the PBTC studies from which data are requested, the specific data requested, and a list of investigators involved with the project and their affiliated research institutions. A copy of the requesting investigator's CV must also be provided. Participating Institutions: Children's Hospital of Philadelphia, Children's National Medical Center (Washington, DC), Children's Memorial Hospital (Chicago), Duke University, National Cancer Institute, St. Jude Children's Research Hospital, Texas Children's Cancer Center, University of California at San Francisco, and University of Pittsburgh. | human, child, pediatric, brain, tumor, cancer, brain cancer, central nervous system, imaging | NCI | grid.477819.4, nlx_143885 | https://ror.org/00hj21c17 | SCR_000658 | 2026-08-29 11:20:44 | 1 | ||||||||
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Autism Tissue Program Resource Report Resource Website 10+ mentions |
Autism Tissue Program (RRID:SCR_000651) | ATP | data or information resource, database, disease-related portal, funding resource, portal, topical portal | Autism research program that makes available post-mortem brain tissue to qualified scientists all over the world. Working directly with tissue banks, organ procurement agencies, medical examiners and the general public, this is the largest program dedicated to increasing and enhancing the availability of post-mortem brain tissue for basic research in autism. To date, the ATP has collected and stored more than 170 brains in their repositories at Harvard (US) and Oxford (UK). These brains are processed by formalin fixation and/or snap frozen to properly provide high quality tissue of all brain regions, in support of biological research in autism. The ATP is unique in that they diligently pursue all available clinical data (pre and post mortem) on tissue donors in order to create the most biologically relevant brain repository for autism research. These data, together with tissue resources from both banks and associated repositories, are presented to all interested researchers through their extensive web-based data portal (login required). The ATP is not a brain bank, but works directly with the Harvard Brain Tissue Resource Center in Boston (HBTRC), Massachusetts to serve as its tissue repository. This program augments brain bank functions by: * Creating the most biologically relevant brain tissue repository possible * Fully covering all costs associated with brain extraction and transfer to the repositories at Harvard (US and Canada) and Oxford (UK). * Providing scientific oversight of tissue distributions * Overseeing and managing all tissue grants * Clinically phenotyping and acquiring extensive medical data on all of their donors * Providing continuing family support and communication to all of their donors * Directly supporting researchers to facilitate autism research * Maintaining a robust web based data management and secure on-line global interface system * Developing and supporting ATP established scientific initiatives * Actively providing public outreach and education The ATP is not a clinical organ procurement agency, but rather they facilitate the wishes of donors and families to donate their tissue to autism research. Through the ATP's established international infrastructure, they work with any accredited tissue bank, organ procurement agency, or medical examiner that receives a family's request to donate their loved one's tissue to the program. Once contacted, the ATP will insure that the family's request to donate their loved one's tissue is faithfully met, covering all costs to the family and partnering agency as well as ensuring the tissues' proper and rapid transport to the ATP's repository at the Harvard Brain Tissue Resource Center (HBTRC) in Boston, Massachusetts. | autism, brain, tissue, clinical data, post-mortem, brain tissue, donate, brain donation, autism spectrum disorder, pervasive development disorder, formalin fixation, snap frozen, tissue section, stained slide, dna, skin fibroblast culture, control, clinical, clinical neuroinformatics, imaging genomics, magnetic resonance, optical imaging, FASEB list |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Autism Speaks has parent organization: Harvard Brain Tissue Resource Center |
Autism, Autism spectrum disorder, Pervasive Development Disorder, Control | Autism Speaks | PMID:16933088 | Free, Freely available | nif-0000-10160 | http://www.brainbank.org/, http://www.autismtissueprogram.org/site/c.nlKUL7MQIsG/b.5183271/k.BD86/Home.htm | SCR_000651 | 2026-08-29 11:20:33 | 28 | ||||
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UNAIDS Resource Report Resource Website 100+ mentions |
UNAIDS (RRID:SCR_000773) | data or information resource, disease-related portal, portal, topical portal | A partnership that leads and inspires the world in achieving universal access to HIV prevention, treatment, care and support. UNAIDS publishes a new Report on the global AIDS epidemic every two years. The Report draws upon and publishes the best available data from countries and provides an overview and commentary on the epidemic and the international response. UNAIDS fulfills its mission by: :- Uniting the efforts of the United Nations system, civil society, national governments, the private sector, global institutions and people living with and most affected by HIV; :- Speaking out in solidarity with the people most affected by HIV in defense of human dignity, human rights and gender equality; :- Mobilizing political, technical, scientific and financial resources and holding ourselves and others accountable for results; :- Empowering agents of change with strategic information and evidence to influence and ensure that resources are targeted where they deliver the greatest impact and bring about a prevention revolution; and :- Supporting inclusive country leadership for sustainable responses that are integral to and integrated with national health and development efforts. Sponsors: This resource is supported by: Advocacy partners; Civil society; Donors; Global Coalition on Women and AIDS; Global Fund to Fight AIDS TB and Malaria; People living with HIV; Private sector, and UN Family. | epidemic, evidence, aids, health, hiv, prevention, treatment | nif-0000-30013 | SCR_000773 | UNAIDS | 2026-08-29 11:20:30 | 208 | ||||||||||
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Colour and Vision Research Laboratory Resource Report Resource Website |
Colour and Vision Research Laboratory (RRID:SCR_000770) | data or information resource, laboratory portal, organization portal, portal | The Colour & Vision Research laboratory and database are based at the Institute of Ophthalmology, which is part of University College London. The Institute and CVRL are both closely associated with Moorfields Eye Hospital. The Institute is next door to Moorfields Eye Hospital near Old Street tube station (see directions). At the Colour & Vision Research laboratory, we investigate normal and clinical human visual perception. Our research focuses on questions about colour perception, light and dark adaptation, night-time vision, and the temporal and spatial properties of vision. Our primary goal is to understand the nature of the mechanisms that underlie visual perception, and to understand how those mechanism malfunction in clinical cases. More details about our research can be found by looking at the publications of members of the laboratory. The CVRL database, first set up in 1995, provides an annotated library of downloadable standard data sets relevant to colour and vision research. The focus of this site is primarily scientific and technical, but some introductory background information is also provided. A consistent set of functions for modeling colour vision based on the Stockman & Sharpe cone fundamentals and on our more recent luminous efficiency measurements are summarized under the category CVRL functions. These functions are tabulated in 0.1, 1 and 5 nm steps and can be returned as csv, xml, or tabular data or as dynamic plots. The Stockman & Sharpe cone fundamentals are the basis of a CIE proposal for physiologically-relevant colour matching functions. These functions, which are indentical to the CVRL functions, are summarized under the category CIE 2007 functions. The CIE functions are also tabulated in 0.1, 1 and 5 nm steps, and can also be returned as csv, xml, or tabular data or as dynamic plots. Significant additions to the database are the individual colour matching measurements made by Stiles & Burch. These have been compiled and cross-checked with the help of Boris Oicherman, Alexander Logvinenko, and Abhijit Sarkar from hard copies of the original data provided by Pat Trezona and Mike Webster. They can be obtained as Excel files and are available for both 2 and 10 colour matches. Other data sets, which are provided as csv files, include cone fundamentals, colour matching functions, chromaticity coordinates, prereceptoral filter density spectra, photopigment spectra, and CIE standards. Many of these data sets can also be viewed as dynamic plots. Sponsors: CVRL is funded by BBSRC The Wellcome Trust, Fight for Sight, National Eye Institute, and NIH. | chromaticity, clinical, color, human, ophthalmology, perception, photopigment, research, spectra, temporal, vision, visual | has parent organization: University College London; London; United Kingdom | nif-0000-24691 | SCR_000770 | CVRL | 2026-08-29 11:20:36 | 0 | |||||||||
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forqs Resource Report Resource Website |
forqs (RRID:SCR_000643) | forqs | simulation software, software application, software resource | Software for forward-in-time population genetics simulation that tracks individual haplotype chunks as they recombine each generation. It also also models quantitative traits and selection on those traits. | c++, linux, osx, windows, command line, simulation, recombination, quantitative trait, selection, haplotype pattern |
is listed by: OMICtools has parent organization: University of California at Los Angeles; California; USA has parent organization: Bitbucket |
NHGRI HG002536; NHGRI R01 HG007089; NSF EF-0928690 |
PMID:24336146 | Free, Available for download, Freely available | OMICS_02196 | SCR_000643 | Forward-in-time simulation of Recombination, and Selection, Quantitative traits | 2026-08-29 11:20:43 | 0 | |||||
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BLASR Resource Report Resource Website 10+ mentions Discontinued |
BLASR (RRID:SCR_000764) | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. C++ long-read aligner for PacBio reads., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | standalone software, c++, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is related to: Proovread |
PMID:22988817 DOI:10.1186/1471-2105-13-23 |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:blasr, OMICS_05134 | https://bio.tools/blasr, https://sources.debian.org/src/blasr/ | SCR_000764 | Basic Local Alignment with Successive Refinement, BLASR: The PacBio long read aligner | 2026-08-29 11:20:47 | 15 | ||||||
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GMcloser Resource Report Resource Website 1+ mentions |
GMcloser (RRID:SCR_000646) | GMcloser | software resource | Software that fills and closes the gaps present in scaffold assemblies, especially those generated by the de novo assembly of whole genomes with next-generation sequencing (NGS) reads. Unlike other gap-closing tools that use only NGS reads, GMcloser uses preassembled contig sets or long read sets as the sequences to close gaps and uses paired-end (PE) reads and a likelihood-based algorithm to improve the accuracy and efficiency of gap closure. The efficiency of gap closure can be increased by successive treatments with different contig sets. | scaffolding, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
PMID:26261222 | Free, Available for download, Freely available | biotools:gmcloser, OMICS_00042 | https://bio.tools/gmcloser | SCR_000646 | Gmcloser - Closing the gaps in scaffolds with preassembled contigs | 2026-08-29 11:20:33 | 3 | |||||
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Syndicated Universities Preparatory Research Educational Program Resource Report Resource Website |
Syndicated Universities Preparatory Research Educational Program (RRID:SCR_000768) | data or information resource, organization portal, portal, training resource | SUPREP MODEL LEARNING is a standardized credit earning academic exchange program that enables a student from any third world countries or technologically deficient institutions around the world, to attend and earn credits from the best traditional recognized accredited institutions globally, in which the credits earned are transferred to the home institution or SUPREP agency for aggregation towards successful graduation. :The goal of this program is to facilitate bringing students from the third world to reputable undergraduate and graduate neuroscience programs. Additionally, this program also aims t o grant Third World Neuroscience students Academic exchange programs worldwide. | education, exchange, academic, institution, international, medical, neuroscience, outreach, professional, program, research, student, study abroad, technologically, third world, undergraduate | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-24046 | SCR_000768 | SUPREP | 2026-08-29 11:20:48 | 0 | |||||||||
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detecttd Resource Report Resource Website |
detecttd (RRID:SCR_000681) | detecttd | software resource | Software tool to detect tandem duplications in sequencing reads. It is written in Python and requires NCBI Blast standalone. | tandem duplication, sequencing read, python, next-generation sequencing |
is listed by: OMICtools has parent organization: SourceForge |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00315 | SCR_000681 | detecttd - Tool to detect tandem duplications in NGS reads | 2026-08-29 11:20:29 | 0 | |||||||
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FastUniq Resource Report Resource Website 1+ mentions |
FastUniq (RRID:SCR_000682) | software resource | A software tool for removal of de novo duplicates in paired short DNA sequences. | de novo, dna, sequence, duplicate, |
is listed by: OMICtools has parent organization: SourceForge |
DOI:10.1371/journal.pone.0052249 | Free, Available for download, Freely available | OMICS_01044 | SCR_000682 | 2026-08-29 11:20:34 | 4 |
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