GSR: Simulator - Bayesian Serial SimCoal

Basic Package Attributes
AttributeValue
Title Bayesian Serial SimCoal
Short Description Bayesian Serial SimCoal, (BayeSSC) is a modification of SIMCOAL 1.0, a program written by Laurent Excoffier, John Novembre, and Stefan Schneider.
Long Description Bayes SSC is powerful because it allows flexible coalescent modelling from a variety of different priors. The enables parameter estimation, likelihood calculations, and Bayesian inference. Typically, BayeSSC generates thousands of hypothetical trees using slightly different population parameters. The simulated genetics of these trees can then be compared to the actual genetics of the user's samples to investigate which history of these many simulated histories is the most likely to have generated the samples.
Project Started 2009
Last Release 9 years, 6 months ago
Homepagehttp://www.stanford.edu/group/hadlylab/ssc/index.html
Citations Excoffier L, Novembre J, Schneider S, SIMCOAL: a general coalescent program for the simulation of molecular data in interconnected populations with arbitrary demography., J Hered, 11-01-2000 [ Abstract, cited in PMC ]
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Last evaluated02-08-2018 (982 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 MethodStandard Coalescent,
Input
Data TypeAllele Frequencies,
File formatArlequin, NEXUS,
Output
Data TypeGenotype or Sequence, Individual Relationship, Diversity Measures,
Sequencing ReadsOther,
File FormatArlequin,
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesExponential Growth or Decline, User Defined,
Gene FlowUser-defined Matrix,
Spatiality
Life Cycle
Mating SystemRandom Mating,
Fecundity
Natural Selection
Determinant
Models
Recombination
Mutation Modelsk-Allele Model, Heterogeneity among Sites,
Events AllowedVarying Demographic Features,
Other
InterfaceCommand-line, Script-based (R),
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix,
LanguageC or C++, R,
LicenseGNU Public License,
GSR CertificationDocumentation,

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