GSR: Simulator - GWAsimulator

Basic Package Attributes
AttributeValue
Title GWAsimulator
Short Description A rapid whole genome simulation program
Long Description GWAsimulator is a C++ program that can simulate genotype data for SNP chips that are used in genome-wide association (GWA) studies. It implements a rapid moving-window algorithm (Durrant et al. 2004. AJHG 75:35-43) to simulate whole genome case-control or population samples. It also can simulate specific regions if desired. For case-control data, the program retrospectively sample cases and controls according to a user-specified multi-locus disease model. The program requires phased data as input, and the simulated data will have similar LD patterns as the input data. The program can use HapMap phased data as input and has the flexibility of simulating genotypes for different populations and different SNP chips. Because many large-scale GWA data are becoming available, they can be used instead of the HapMap data as the input, as long as the phase information is generated. These data may provide a better representation of the population under study and more accurate LD information than the HapMap due to much larger sample sizes. See the manual for instructions and detailed description of the program
Version 2.1
Project Started 2008
Last Release 8 years, 2 months ago
Homepagehttp://biostat.mc.vanderbilt.edu/wiki/Main/GWAsimulator
Citations Li C, Li M, GWAsimulator: a rapid whole-genome simulation program., Bioinformatics, 01-01-2008 [ Abstract, cited in PMC ]
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Documentation
Application
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Last evaluated10-03-2019 (380 days ago)
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataGenotype at Genetic Markers,
VariationsSingle Nucleotide Variation,
Simulation MethodOther,
Input
Data TypeEmpirical (Hapmap data),
File format
Output
Data TypeGenotype or Sequence,
Sequencing Reads
File FormatProgram Specific,
Sample TypeCase-control,
Phenotype
Trait TypeBinary or Qualitative,
DeterminantsSingle Genetic Marker, Multiple Genetic Markers, Gene-Gene Interaction,
Evolutionary Features
Demographic
Population Size Changes
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
Recombination
Mutation Models
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsWindows, Linux and Unix,
LanguageC or C++,
LicenseGNU Public License,
GSR CertificationAccessibility, Documentation,

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