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GROOT

  • Description

    GROOT is a tool to type Antibiotic Resistance Genes (ARGs) in metagenomic samples (a.k.a. Resistome Profiling). It combines variation graph representation of gene sets with an LSH indexing scheme to allow for fast classification of metagenomic reads. Subsequent hierarchical local alignment of classified reads against graph traversals facilitates accurate reconstruction of full-length gene sequences using a simple scoring scheme.

  • Usage

    To list all executables provided by GROOT, run: $ biogrids-list groot Copy to clipboard

  • Installation

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

  • Primary Citation*

    W. P. M. Rowe and W. MD.. 2018. Indexed variation graphs for efficient and accurate resistome profiling. Bioinformatics. 34(21): 3601-3608.


    • *Full citation information available through

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