GSR: Simulator - RECOAL

Basic Package Attributes
AttributeValue
Title RECOAL
Short Description Simulates new haplotype data from a reference population of haplotypes.
Long Description RECOAL simulates new haplotype data from a reference population of haplotypes. A coalescent genealogy for the reference haplotype data is sampled from the appropriate posterior probability distribution, then a coalescent genealogy is simulated which extends the sampled genealogy to include new haplotype data. The new haplotype data will therefore contain both some of the existing polymorphic sites and new polymorphisms added based on the structure of the simulated coalescent genealogy.
Project Started 2012
Last Release 8 years, 8 months ago
Homepagehttps://github.com/cjkang/RECOAL
Citations Kang CJ, Marjoram P, Exact coalescent simulation of new haplotype data from existing reference haplotypes., Bioinformatics, 03-15-2012 [ Abstract, cited in PMC ]
GSR Certification

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Last evaluated03-12-2020 (219 days ago)
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataHaploid DNA Sequence,
VariationsBiallelic Marker, Single Nucleotide Variation,
Simulation MethodStandard Coalescent, Resample Existing Data,
Input
Data TypeEmpirical (Simulated, or obtained from hapmap or 1000 genomes),
File formatMS,
Output
Data TypeGenotype or Sequence,
Sequencing Reads
File FormatMS,
Sample TypeRandom or Independent,
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size, Exponential Growth or Decline,
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
RecombinationUniform, Varying Recombination Rates,
Mutation ModelsTwo-allele Mutation Model, Markov DNA Evolution Models,
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsMac OS X, Linux and Unix,
LanguageC or C++,
License
GSR CertificationAccessibility,

No example publication using RECOAL has been provided.

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