SANTA-SIM: simulating viral sequence evolution dynamics under selection and recombination.

Clicks: 345
ID: 80503
2019
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Abstract
Simulations are widely used to provide expectations and predictive distributions under known conditions against which to compare empirical data. Such simulations are also invaluable for testing and comparing the behaviour and power of inference methods. We describe SANTA-SIM, a software package to simulate the evolution of a population of gene sequences forwards through time. It models the underlying biological processes as discrete components: replication, recombination, point mutations, insertion-deletions, and selection under various fitness models and population size dynamics. The software is designed to be intuitive to work with for a wide range of users and executable in a cross-platform manner.
Reference Key
jariani2019santasimvirus Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Jariani, Abbas;Warth, Christopher;Deforche, Koen;Libin, Pieter;Drummond, Alexei J;Rambaut, Andrew;Matsen Iv, Frederick A;Theys, Kristof;
Journal Virus evolution
Year 2019
DOI
10.1093/ve/vez003
URL
Keywords
Simulation mutation fitness selection recombination

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