GSR: Simulator - ARGON

Basic Package Attributes
AttributeValue
Title ARGON
Short Description Fast, whole-genome simulation of the discrete time Wright-Fisher process
Long Description ARGON simulates the discrete time Wright Fisher process (DTWF) backwards in time. The coalescent is equivalent to the DTWF process if the sample size is small compared to the effective population size, but will deviate from it as the sample size increases (Wakeley and Takahashi, MBE 2003; Bhaskar, Clark and Song, PNAS 2014). ARGON supports arbitrary demographic history, migration, variable mutation/recombination rates and gene conversion, and efficiently outputs pairwise identical-by-descent (IBD) sharing data.
Version 0.1.160415
Last Release 5 years, 3 months ago
Homepagehttps://github.com/pierpal/ARGON
Citations Palamara PF, ARGON: fast, whole-genome simulation of the discrete time Wright-fisher process., Bioinformatics, 10-01-2016 [ Abstract, cited in PMC ]
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Last evaluated07-08-2021 (21 days ago)
Author verificationThe basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator.
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataHaploid DNA Sequence,
VariationsSingle Nucleotide Variation,
Simulation MethodExact Coalescent,
Input
Data Type
File format
Output
Data TypeGenotype or Sequence,
Sequencing Reads
File FormatVCF,
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size, Exponential Growth or Decline, Logistic Growth, Bottleneck, Carrying Capacity, User Defined,
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
RecombinationUniform, Varying Recombination Rates,
Mutation Models
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix,
LanguageJava,
License
GSR CertificationAccessibility, Documentation, Support,

No example publication using ARGON has been provided.

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