Results for "Similarity"

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  • LAST

    LAST can: Handle big sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads to a genome Indicate the reliability of each aligned column. Use sequence quality data properly. Compare DNA to proteins, with frameshifts. Compare PSSMs to ...

    Tags: Bioinformatics, Chromosome, Genome, NGS, Align, Compare, Similarity

    2656 days ago

  • pyScaf

    pyScaf orders contigs from genome assemblies utilising several types of information: paired-end (PE) and/or mate-pair libraries (NGS-based mode) long reads (NGS-based mode) synteny to the genome of some related species (reference-based mode) Scaffolding  In reference-based mode, pyS...

    Tags: Bioinformatics, Chromosome, Genome, NGS, Align, Compare, Similarity, Scaffolding

    2656 days ago

  • MOSS: A System for Detecting Software Similarity

    Moss (for a Measure Of Software Similarity) is an automatic system for determining the similarity of programs. To date, the main application of Moss has been in detecting plagiarism in programming classes. Since its development in 1994, Moss has been very effective in this role. The algorithm beh...

    Tags: MOSS, System, Detecting, Software, Similarity, detect, plagiarism, programming

    2301 days ago

  • PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool

    PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of seeds-based heuristic comparison methods, such as the Blast suite of algorithms. Relying on unique software architecture, PLAST takes full advantage of recent multi-core...

    Tags: PLAST, fast, accurate, NGS, scalable, bank-to-bank, sequence, similarity, search, tool

    2309 days ago

  • Circoletto: visualizing sequence similarity with Circos

    Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results. Online version and downloadable software package for offline use (source code in PERL) freely available at http://bat.ina.c...

    Tags: Circoletto, visualize, sequence, blast, similarity, Circos

    2239 days ago

  • kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity

    The k-mer Weighted Inner Product. This software implements a de novo, alignment free measure of sample genetic dissimilarity which operates upon raw sequencing reads. It is able to calculate the genetic dissimilarity between samples without any reference genome, and without assembling one.   ...

    Tags: kWIP, k-mer, weighted, inner, product, de novo, estimator, genetic, similarity

    2130 days ago

  • GMASS: a novel measure for genomeassembly structural similarity

    The GMASS score is a novel measure for representing structural similarity between two assemblies. It will contribute to the understanding of assembly output and developing de novo assemblers. https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2710-z

    Tags: GMASS, novel, measure, genome, assembly, structural, similarity

    1809 days ago

  • Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences

    Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological sequence analyses but it is limited by the verbosit...

    Tags: Miropeats, discovers, regions, sequence, similarity, DNA, sequences

    1676 days ago

  • k-mers tutorial - classification and taxonomy

    DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently, discard redundant data, and count them efficiently. More recently, we've been enthused about using k-mer based simila...

    Tags: kmer, k-mer, taxonomy, classification, tree, plot, database, similarity, comparision

    945 days ago

  • CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation

    CrowdGO is a protein Gene Ontology predictor using a meta approach, analyzing the predictions of other tools in order to get an improved precision and recall. Please note that the CrowdGO snakemake workflow is currently only tested on Ubuntu. It should work on OSX, but please report any errors t...

    Tags: CrowdGO, Machine, learning, semantic, similarity, guided, consensus, Gene, Ontology, annotation, GO

    672 days ago