GSR: Simulator - quantiNEMO

Basic Package Attributes
AttributeValue
Title quantiNEMO
Short Description An individual-based program for the analysis of quantitative traits with explicit genetic architecture potentially under selection in a structured population
Long Description quantiNEMO is an individual-based, genetically explicit stochastic simulation program. It was developed to investigate the effects of selection, mutation, recombination, and drift on quantitative traits with varying architectures in structured populations connected by migration and located in a heterogeneous habitat. quantiNEMO is highly flexible at various levels: population, selection, trait(s) architecture, genetic map for QTL and/or markers, environment, demography, mating system, etc. quantiNEMO is a console program, and is coded in standard C++ using an object oriented approach, runs on any computer platform, and is distributed under an open source license.
Version 1.0.4
Project Started 2008
Last Release 9 years, 1 month ago
Homepagehttp://www2.unil.ch/popgen/softwares/quantinemo/
Citations Neuenschwander S, Hospital F, Guillaume F, Goudet J, quantiNemo: an individual-based program to simulate quantitative traits with explicit genetic architecture in a dynamic metapopulation., Bioinformatics, 07-01-2008 [ Abstract, cited in PMC ]
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Last evaluated06-01-2015 (1965 days ago)
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataGenotype at Genetic Markers, Diploid DNA Sequence,
VariationsBiallelic Marker, Multiallelic Marker, Single Nucleotide Variation, Microsatellite,
Simulation MethodForward-time,
Input
Data TypeAllele Frequencies, Empirical,
File formatFstat, Program Specific,
Output
Data TypeGenotype or Sequence, Phenotypic Trait, Individual Relationship, Demographic, Diversity Measures, Fitness,
Sequencing ReadsOther (F-statistics),
File FormatFstat,
Sample TypeExtended or Complete Pedigrees,
Phenotype
Trait TypeBinary or Qualitative, Quantitative, Multiple,
DeterminantsSingle Genetic Marker, Multiple Genetic Markers, Gene-Gene Interaction, Environmental Factors, Gene-Environment Interaction,
Evolutionary Features
Demographic
Population Size ChangesConstant Size, Exponential Growth or Decline, Logistic Growth, Bottleneck, Carrying Capacity, User Defined,
Gene FlowStepping Stone Models, Island Models, Sex or Age-Specific Migration Rates, User-defined Matrix,
Spatiality
Life CycleDiscrete Generation Model,
Mating SystemRandom Mating, Monogamous, Polygamous, Selfing,
FecundityConstant Number, Randomly Distributed, Individually Determined, Influenced by Environment,
Natural Selection
DeterminantSingle-locus, Multi-locus, Phenotypic Trait, Environmental Factors,
ModelsDirectional Selection, Balancing Selection, Multi-locus models, Epistasis,
RecombinationUniform, Varying Recombination Rates,
Mutation ModelsTwo-allele Mutation Model, k-Allele Model, Stepwise Mutation Model, Heterogeneity among Sites,
Events AllowedPopulation Merge and Split, Varying Demographic Features, Population Events, Varying Genetic Features,
Other
InterfaceCommand-line,
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix,
LanguageC or C++,
LicenseGNU Public License,
GSR CertificationAccessibility, Documentation,

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