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Supported Applications

VSEARCH

  • Description

    an alternative to the USEARCH tool developed by Robert C. Edgar (2010) for which the source code is not publicly available, VSEARCH is an open source, multithreaded 64-bit tool for processing and preparing metagenomics, genomics, and population genomics nucleotide sequence data. It supports de novo and reference based chimera detection, clustering, full-length and prefix dereplication, rereplication, reverse complementation, masking, all-vs-all pairwise global alignment, exact and global alignment searching, shuffling, subsampling, and sorting. It also supports FASTQ file analysis, filtering, conversion, and merging of paired-end reads.

  • Usage

    To list all executables provided by VSEARCH, run: $ biogrids-list vsearch Copy to clipboard

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install vsearch Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • Primary Citation*

    T. Rognes, T. Flouri, B. Nichols, C. Quince, and F. Mahé. 2016. VSEARCH: a versatile open source tool for metagenomics. PeerJ. 4: e2584.


    • *Full citation information available through

  • Keywords

    Metagenomic Sequencing Analysis

  • Default Versions

    Linux 64:  2.14.2 (2.4 MB)
    OS X INTEL:  2.14.2 (847.5 KB)

  • Other Versions

      Linux 64:

      2.11.1 (2.2 MB) , 2.9.0 (2.2 MB)

    • OS X INTEL:

      2.11.1 (802.7 KB) , 2.9.0 (596.4 KB)

  • Developers

    Torbjørn Rognes

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