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Kmer-SSR

Kmer-SSR

Kmer-SSR is a tool to detect simple sequence repeats (SSRs) in genomic sequences. The Kmer-SSR algorithm has an option for an exhaustive search.

Topic

Sequence composition, complexity and repeats; Sequence analysis; Sequencing

Details

  • Operation: Repeat sequence detection
  • Input: FASTA
  • Output: Tab-delimited (.tsv)
  • Software interface: Command-line user interface
  • Language: C++
  • Operating system: Linux
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: Brigham Young University and the Department of Biology
  • Contact: perry.ridge _at_ byu.edu
  • Collection: -

Publications

Pickett BD, Miller JB, Ridge PG "Kmer-SSR: a fast and exhaustive SSR search algorithm." Bioinformatics. 2017 Dec 15;33(24):3922-3928. https://doi.org/10.1093/bioinformatics/btx538
PMID: 28968741
PMCID: PMC5860095


Download and documentation




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