SEEDY

SEEDY (Simulation of Evolutionary and Epidemiological Dynamics) is an R tool package to simulate evolutionary and epidemiological dynamics. The SEEDY algorithm uses stochastic models to accumulate mutations within hosts' disease transmission.

Topic

Pathology;DNA mutation

Detail

  • Operation: Sequence alignment analysis (site correlation)

  • Software interface: Command-line user interface

  • Language: R

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: 1.3

  • Credit: The National Institute of General Medical Sciences of the National Institutes of Health.

  • Input: -

  • Output: -

  • Contact: Colin J. Worby cworby@hsph.harvard.edu

  • Collection: -

  • Maturity: -

Publications

  • 'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens.
  • Worby CJ, Read TD. 'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens. PLoS One. 2015 Jun 15;10(6):e0129745. doi: 10.1371/journal.pone.0129745. PMID: 26075402; PMCID: PMC4467979.
  • https://doi.org/10.1371/journal.pone.0129745
  • PMID: 26075402
  • PMC: PMC4467979

Download and documentation

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