Results for "genome"

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  • String graph based genome assembly software and tools !

    In graph theory, a string graph is an intersection graph of curves in the plane; each curve is called a "string".  String graphs were first proposed by E. W. Myers in a 2005 publication. In recent Genome Research paper describing an...

    Tags: String, graph, genome, assembly, software, tools !

    2291 days ago

  • Delta: a new Web-based 3D genome visualization and analysis platform

    Delta is an integrative visualization and analysis platform to facilitate visually annotating and exploring the 3D physical architecture of genomes. Delta takes Hi-C or ChIA-PET contact matrix as input and predicts the topologically associating domains and chromatin loops in the ge...

    Tags: Delta, Web-based, 3D, genome, visualization, analysis, platform

    2290 days ago

  • Magic-BLAST: a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome.

    Magic-BLAST is a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome. Each alignment optimizes a composite score, taking into account simultaneously the two reads of a pair, and in case of RNA-seq, locating the candidate introns and adding up ...

    Tags: Magic-BLAST, mapping, next-generation, RNA, DNA, sequencing, whole, genome, transcriptome.

    2284 days ago

  • http://www.iprotein.info/ #genome #pathways #visualisation

    Tags: genome, pathways, visualisation

    2270 days ago

  • GIGGLE: a search engine for large-scale integrated genome analysis

    GIGGLE is a genomics search engine that identifies and ranks the significance of genomic loci shared between query features and thousands of genome interval files. GIGGLE (https://github.com/ryanlayer/giggle) scales to billions of intervals and is over three orders of magnitude faster than existi...

    Tags: GIGGLE, search, engine, large-scale, integrated, genome, analysis

    2270 days ago

  • AliTV—interactive visualization of whole genome comparisons

    AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignments or automatically generates alignments from the provided data. Optional feature annotations and phylo- genetic information are supported. The user-friendly, web-browser based an...

    Tags: AliTV, interactive, visualization, whole, genome, comparisons

    2269 days ago

  • MGcV: the microbial genomic context viewer for comparative genome analysis

    MGcV is an interactive web-based visalization tool tailored to facilitate small scale genome analysis. To start using MGcV: Supply your genes/genomic segments/phylogenetic tree of interest in the input-box by selecting the type of identifier and pasting identifiers (one per line) or b...

    Tags: MGcV, microbial, genomic, context, viewer, comparative, genome, analysis

    2250 days ago

  • List of visualization tools for genome alignments

    Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which leads to better results. But sometime, we need publi...

    Tags: List, visualization, tools, genome, alignments, NGS

    2246 days ago

  • MUMmer4: A fast and versatile genome alignment system

    MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 32-bit suffix tree data structure at the core of MUMmer to a 48-bit suffix array, and that offers improved speed through parallel processing of input query sequences. With a theoretical limi...

    Tags: MUMmer4, fast, versatile, genome, alignment, system

    2245 days ago

  • GenomeTools: The versatile open source genome analysis software

    The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt. It is based on a C library named “libgenometools” which consists of several modules. If ...

    Tags: GenomeTools, versatile, open, source, genome, analysis, software

    2241 days ago