Results for "k-mer"

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  • COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly

    An efficient tool called Connecting Overlapped Pair-End (COPE) reads, to connect overlapping pair-end reads using k-mer frequencies. We evaluated our tool on 30× simulated pair-end reads from Arabidopsis thaliana with 1% base error. COPE connected over 99% of reads with 98.8% accuracy, whic...

    Tags: COPE, accurate, k-mer, pair-end, reads, connection, tool, genome, assembly

    78 days ago

  • Musket: a multistage k-mer spectrum based corrector

    Musket is a well-established leading next-generation sequencing read error correction algorithm targetting Illumina sequencing. This corrector employs the k-mer spectrum approach and introduces three correction techniques in a multistage workflow. Our performance evaluation results, in ...

    Tags: Musket, multistage, k-mer, spectrum, corrector

    78 days ago

  • Tallymer: method to compute K-mer frequencies and its application to annotate large repetitive plant genomes

    Tallymer is based on enhanced suffix arrays. This gives a much larger flexibility concerning the choice of the k-mer size. Tallymer can process large data sizes of several billion bases. We used it in a variety of applications to study the genomes of maize and other plant species. In particu...

    Tags: Tallymer, method, compute, K-mer, frequencies, application, annotate, large, repetitive, plant, genomes

    7 days ago