GSR: Simulator - GASP

Basic Package Attributes
AttributeValue
Title GASP
Short Description Genometric Analysis Simulation Program. A software tool for testing and investigating methods in statistical genetics by generating samples of family data based on user specified models.
Long Description The Genometric Analysis Simulation Program (G.A.S.P.) is a software tool that can generate samples of family data based on user specified genetic models. Data generated can be as simple as a single sample of random individuals with a single normally distributed trait or as complex as thousands of samples of extended families with multiple traits based on a linear combination of major locus, polygenic, common sibship environment and covariate components. Traits can be generated based on a number of user specified components, and components can be unique to a single trait or shared by multiple traits. The user first specifies a list of all desired components and then creates each trait by specifying the desired component weighted by its contribution to the phenotypic variance. G.A.S.P. can be used in two ways. First, data can be generated in a standalone fashion. The resulting family data can be saved and then used as sample data for demonstrating applications and methods of genetic analysis or for testing and verifying newly developed algorithms in statistical genetics. A simple driver ("dataonly") is provided for this application. Second, data can be generated and analyzed immediately using an existing statistical package. A driver can be designed to call subroutine versions of widely available genetic analysis programs.
Version V3.33 (7/30/2003)
Project Started 1997
Last Release 17 years, 2 months ago
Homepagehttp://research.nhgri.nih.gov/gasp/
Citations Wilson, A.F., Bailey-Wilson, J.E., Pugh, E.W., Sorant, A.J.M., The Genometric Analysis Simulation Program (G.A.S.P.): a software tool for testing and investigating methods in statistical genetics, Am J Hum Genet., None
GSR Certification

Accessibility
Documentation
Application
Support

Last evaluated12-13-2018 (674 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 DataGenotype at Genetic Markers,
VariationsBiallelic Marker, Single Nucleotide Variation,
Simulation MethodOther,
Input
Data Type
File format
Output
Data TypeGenotype or Sequence, Individual Relationship,
Sequencing Reads
File Format
Sample TypeRandom or Independent, Sibpairs, Trios and Nuclear Families, Extended or Complete Pedigrees,
Phenotype
Trait TypeQuantitative, Multiple (Traits could share components and be related),
DeterminantsSingle Genetic Marker, Multiple Genetic Markers, Environmental Factors,
Evolutionary Features
Demographic
Population Size ChangesConstant Size,
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
Recombination
Mutation Models
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsLinux and Unix (Dec unix), Solaris, Others (Irix),
LanguageOther (Fortran),
LicenseOther (United states government work),
GSR CertificationDocumentation,

The following 7 publications are selected examples of applications that used GASP.

2006

Mandal DM, Sorant AJ, Atwood LD, Wilson AF, Bailey-Wilson JE, Allele frequency misspecification: effect on power and Type I error of model-dependent linkage analysis of quantitative traits under random ascertainment., BMC Genet, 04-20-2006 [Abstract]

Doan BQ, Sorant AJ, Frangakis CE, Bailey-Wilson JE, Shugart YY, Covariate-based linkage analysis: application of a propensity score as the single covariate consistently improves power to detect linkage., Eur J Hum Genet, 09-01-2006 [Abstract]

Gillanders EM, Pearson JV, Sorant AJ, Trent JM, O'Connell JR, Bailey-Wilson JE, The value of molecular haplotypes in a family-based linkage study., Am J Hum Genet, 09-01-2006 [Abstract]

2000

Wilson AF, Sorant AJ, Equivalence of single- and multilocus markers: power to detect linkage with composite markers derived from biallelic loci., Am J Hum Genet, 05-01-2000 [Abstract]

1995

Nick TG, George V, Elston RC, Wilson AF, Statistical validity for testing associations between genetic markers and quantitative traits in family data., Genet Epidemiol, 01-01-1995 [Abstract]

1993

Wilson AF, Elston RC, Statistical validity of the Haseman-Elston sib-pair test in small samples., Genet Epidemiol, 01-01-1993 [Abstract]

1989

Amos CI, Elston RC, Wilson AF, Bailey-Wilson JE, A more powerful robust sib-pair test of linkage for quantitative traits., Genet Epidemiol, 01-01-1989 [Abstract]


Propose changes to this simulator