Results for "Analysis"
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Fermi is a de novo assembler with a particular focus on assembling Illumina short sequence reads from a mammal-sized genome. In addition to the role of a typical assembler, fermi also aims to preserve heterozygotes which are often collapsed by other assemblers. Its ultimate goal is...Tags: Bioinformatics, Analysis, NGS, FERMI, Assembler, Genome
2779 days ago
- Watch out: only a few files are counted in coverage statistics. Full documentation on Read the Docs. A set of tools for viral metagenomics. virmet is called with a command subcommand syntax: virmet fetch --viral n, for example, downloads the bacterial database. Other available subcom...
Tags: Bioinformatics, Analysis, NGS, VirMet, Genome, MetaGenome
2748 days ago
- Metagenomics sequencing projects collect samples of DNA from uncharacterized environments that may contain hundreds or even thousands of species. One of the main challenges in analyzing a metagenome is phylogenetic classification of raw sequence reads into groups representing the same or similar ...
Tags: Bioinformatics, Analysis, NGS, PHYMMBL, Genome, MetaGenome, Classification, Reads
2748 days ago
- Visualization has played an extremely important role in the current genomic revolution to inspect and understand variants, expression patterns, evolutionary changes, and a number of other relationships. However, most of the information in read-to-reference or genome-genome alignments is lost for ...
Tags: Bioinformatics, Analysis, NGS, Visualization, Genome, Rearrangement, Ribbon
2738 days ago
- Background: Transcriptomics, metabolomics, metagenomics, and other various next-generation sequencing (-omics) fields are known for their production of large datasets. Visualizing such big data has posed technical challenges in biology, both in terms of available computational resources as well a...
Tags: Bioinformatics, Analysis, NGS, HeatMap, Genome, Shinyheatmap, R, Visualize, Map, Transcriptomics, Metabolomics, Metagenomics
2738 days ago
- Summary: GenomeScope is an open-source web tool to rapidly estimate the overall characteristics of a genome, including genome size, heterozygosity rate, and repeat content from unprocessed short reads. These features are essential for studying genome evolution, and help to choose para...
Tags: Bioinformatics, Analysis, NGS, GenomeScope, Genome, Stats, Estimate, Heterozygosity, repeat content, Statistical
2330 days ago
- Seven Bridges is the biomedical data analysis company accelerating breakthroughs in genomics research for cancer, drug development and precision medicine. We build self-improving systems to analyze millions of genomes, including the Graph Genome Suite — the most advanced populatio...
Tags: Bioinformatics, Analysis, NGS, Network, Graph
2730 days ago
- The eFORGE tool provides a method to view the tissue specific regulatory component of a set of EWAS DMPs. eFORGE analysis takes a set of DMPs, such as those hits above genome-wide significance threshold in an EWAS study, and analyses whether there is enrichment for overlap of putative functional ...
Tags: Bioinformatics, Analysis, NGS, eFORGE, Genome, EWAS
2730 days ago
- HybPiper was designed for targeted sequence capture, in which DNA sequencing libraries are enriched for gene regions of interest, especially for phylogenetics. HybPiper is a suite of Python scripts that wrap and connect bioinformatics tools in order to extract target sequences from high-throughpu...
Tags: Bioinformatics, Analysis, NGS, HybPiper, Genome, Network, Capture, Genes
2724 days ago
- LINKS is a genomics application for scaffolding genome assemblies with long reads, such as those produced by Oxford Nanopore Technologies Ltd. It can be used to scaffold high-quality draft genome assemblies with any long sequences (eg. ONT reads, PacBio reads, another draft genomes, etc) Paper a...
Tags: Bioinformatics, Analysis, NGS, LINK, Genome, Scaffoldings
2723 days ago
