Results for "noisy"

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  • miniasm: very fast OLC-based de novo assembler for noisy long reads

    Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream assemblers, miniasm does not have a consensus step. I...

    Tags: Ultrafast, de novo, assembly, long, noisy, reads, consensus

    2314 days ago

  • rHAT: a seed-and-extension-based noisy long read alignment tool

    rHAT is a seed-and-extension-based noisy long read alignment tool. It is suitable for aligning 3rd generation sequencing reads which are in large read length with relatively high error rate, especially Pacbio's Single Molecule Read-time (SMRT) sequencing reads.

    Tags: rHAT, seed-and-extension-based, noisy, long, read, alignment, tool, ont, pacbio

    2014 days ago

  • Wtdbg2: a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore

    Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then builds the consensus from intermediate assembly output. Wtdbg2 is able to assemble the human and even the 32Gb&n...

    Tags: Wtdbg2, de novo, sequence, assembler, long, noisy, reads, PacBio, Oxford, Nanopore, ONT

    1988 days ago

  • COSINE: non-seeding method for mapping long noisy sequences

    Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long reads contaminated by a high level of errors.

    Tags: COSINE, non-seeding, method, mapping, long, noisy, sequences

    1981 days ago

  • lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data

    lordFAST is a sensitive tool for mapping long reads with high error rates. lordFAST is specially designed for aligning reads from PacBio sequencing technology but provides the user the ability to change alignment parameters depending on the reads and application. lordFAST, a novel long-read mapp...

    Tags: lordFAST, sensitive, Fast, Alignment, Search, Tool, LOng, noisy, Read, sequencing, Data

    1949 days ago

  • wtdbg2: A fuzzy Bruijn graph approach to long noisy reads assembly

    Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then builds the consensus from intermediate assembly output.  ./wtdbg2 -x rs -g 4.6m -t 16 -i reads.fa.gz -fo p...

    Tags: wtdbg2, fuzzy, Bruijn, graph, approach, long, noisy, reads, assembly

    1880 days ago