Curator Dashboard

Software tool for computing genome assembly likelihoods.Computes likelihood of reads with respect to assembly and statistical model which can be used as metric for evaluating assemblies. Novel likelihood based approach to assembly assessment in absence of ground truth.

• Resource
• RRID-Legacy
• 7 years ago - by Anonymous

Software package for identification of long terminal repeat retrotransposons (LTR-RTs). Removes false positives from initial software predictions. Achieves very high specificity, accuracy, and precision without significantly sacrificing sensitivity, hence significantly outperforming existing methods. Can construct LTR libraries directly from self-corrected PacBio reads prior to genome assembly.

• Resource
• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as de novo assembler for PacBio and Oxford Nanopore data. It produces assembly from all-vs-all raw read alignments without error correction stage. Allows to read overlapping, rescue missing overlaps, identify low-quality regions and chimaera and produce better consensus.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software set of tools that facilitate overlapping, patching, correction and assembly of noisy long reads.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as long read mapper designed to align PacBio or Oxford Nanopore reads to reference genome and optimized for structural variation detection.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as structural variation caller using third generation sequencing (PacBio or Oxford Nanopore). It detects all types of SVs (10bp+) using evidence from split-read alignments, high-mismatch regions, and coverage analysis. Used to avoid single molecule long read sequencing high error rates.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as modular command line solution for visualisation, quality control and taxonomic partitioning of genome datasets. Used for interrogation of genome assemblies. Assists in primary partitioning of data, leading to improved assemblies, and screening of final assemblies for potential contaminants.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool for separation haplotigs from genome assembly. Method to separate haplotigs based on sequence similarity.

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• RRID-Legacy
• 7 years ago - by Anonymous

Pipeline for reassigning primary contigs that should be labelled as haplotigs. Used for third generation sequencing based assemblies to automate reassignment of allelic contigs, and to assist in manual curation of genome assemblies.

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• RRID-Legacy
• 7 years ago - by Anonymous

FAIRsharing is a web-based, searchable portal of three interlinked registries, containing both in-house and crowdsourced manually curated descriptions of standards, databases and data policies, combined with an integrated view across all three types of resource. By registering your resource on FAIRsharing, you not only gain credit for your work, but you increase its visibility outside of your direct domain, so reducing the potential for unnecessary reinvention and proliferation of standards and databases.FAIRsharing Portal: search and navigate through our interlinked content; help your decision-making process through our life cycle and adoption indicators; recommend resources, grouped by domain, species or organization; add/edit a resource's record.

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• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

Software to perform Probit and Logit analsis with grouped data. Original Polo Software available through USB Drive. Able to work on all versions of Windows as all files are kept on USB.

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• RRID-Legacy
• 7 years ago - by Anonymous

Standardized method to export statistical data, associated with KOMP project. Standard way to keep data and results of analyzing that data together.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Metadata management system built for EBRAINS. Multi modal metadata store which brings together information from different areas of Human Brain Project as well as from external partners. Graph database tracks linkage between experimental data and neuroscientific data science supporting more extensive data reuse and complex computational research.Supports rich terminologies, ontologies and controlled vocabularies. Built by design to support iterative elaborations of common standards and supports these by probabilistic suggestion and review systems.

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• dkNET
• 7 years ago - submitted by Tom Gillespie

National research consortium designed to discover and perform preliminary characterization of range of molecular transducers that underlie effects of physical activity in humans. Used to study molecular changes that occur during and after exercise and to advance understanding of how physical activity improves and preserves health. Six year program into mechanisms of how physical activity improves health and prevents disease led by NIH Office of Strategic Coordination, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institute of Diabetes and Digestive and Kidney Diseases, National Institute on Aging, and National Institute of Biomedical Imaging and Bioengineering.

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• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Collection of chemical compounds and associated information that were automatically extracted by text mining content of PubMed and PubChem databases. Unifies chemical lists from metabolomics, systems biology, environmental epidemiology, occupational expossure, toxiology and nutrition fields.

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• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Software tool for chemical similarity enrichment analysis of metabolomics datasets. Used in studies to uncover biological mechanisms in organisms under genetic or environmental stress in system biology manner or finding risk factors for chronic diseases in exposome wise association studies using blood specimens. Allows users to realize pathway analysis.

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• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Software framework for performing benchmarks of machine learning classification algorithms. Containerized benchmarking tool for machine-learning classification of tabular data.

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• SciCrunch
• 7 years ago - submitted by Stephen Piccolo

Repository of math software. Information service for mathematical software. Provides access to database of information on mathematical software and includes systematic linking of software packages with relevant mathematical publications. Database for references on mathematical software.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Public liberal arts university in Willimantic, Connecticut.

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• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

Web based tool to download gene expression datasets from GEO in order to perform differential expression and survival analysis for gene of interest. Produces publication ready graphics and generates R code ensuring that all analyses are reproducible. Web based application for analyzing gene expression omnibus datasets.

• Resource
• RRID-Legacy
• 7 years ago - by Anonymous