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  • Kmer-SSR: a fast and exhaustive SSR search algorithm

     

    Authors: Brandon Pickett, Justin Miller, Perry Ridge

    Bioinformatics

    Article

    GitHub

    December, 2017

     

    1 citation

    Altmetric Score of 2

        446 PDF Downloads

        Tweeted by 4 people, reached 5,087 followers

        7 readers on Mendeley

    4 Stars on GitHub

    OmicTools

  • Novelty of Approach

     

    -Identifies all SSRs

    -Allows for complex filtering of SSRs

     

    1. Identify SSRs from left to right

    2. Identify SSRs with the largest period size first

    3. Create a Boolean filter array

     

  • Results

     

    -Guaranteed to identify all SSRs

    -Linear time SSR identification

    -Provides options for a truly exhaustive SSR search

    -Faster than almost all other algorithms

     

  • Implications

     

    -Phylogenetics and species identification

    -Enables faster SSR pipelines and SSR analyses