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Simulation software tools | Genome-wide association analysis

The association analysis between single nucleotide polymorphisms (SNPs) and disease or endpoint in genome-wide association studies (GWAS) has been considered as a powerful strategy for investigating genetic susceptibility and for identifying…
iSG
Desktop

iSG indel-Seq-Gen

Simulates highly divergent DNA sequences and protein superfamilies. iSG is a…

Simulates highly divergent DNA sequences and protein superfamilies. iSG is a method for simulating protein sequence evolution and generating realistic protein families. This is accomplished through…

SeqSIMLA
Desktop

SeqSIMLA

A simulation tool that can simulate sequence data with user-specified disease…

A simulation tool that can simulate sequence data with user-specified disease and quantitative trait models. SeqSIMLA can efficiently simulate sequence data with disease or quantitative trait models…

GESDB
Dataset

GESDB Genetic Epidemiology Simulation Database

A platform for sharing simulation data and discussion of simulation techniques…

A platform for sharing simulation data and discussion of simulation techniques for human genetic studies. GESDB contains simulation scripts, simulated data, and documentations from published…

TraitRateProp
Web

TraitRateProp

Provides statistical means to infer the strength of association between the…

Provides statistical means to infer the strength of association between the rate of sequence evolution in a given genomic region and a phenotype of interest. TraitRateProp is a web server that allows…

RarePedSim
Desktop

RarePedSim Rare-variant Pedigree-based Simulator

Simulates region/gene-level genotype and phenotype data for complex and…

Simulates region/gene-level genotype and phenotype data for complex and Mendelian traits for any given pedigree structure. Using a genetic model, sequence variant data can be generated either…

ESPRESSO
Desktop
Web
DHOEM
Desktop

DHOEM Densification of Haplotypes by lOEss and Maximum likelihood

A simulation software that does not belong to the three aforementioned…

A simulation software that does not belong to the three aforementioned approaches. DHOEM is a statistical procedure that simulates new markers, according to statistical modeling of local data…

GAMETES
Desktop

GAMETES Genetic Architecture Model Emulator for Testing and Evaluating Software

Generates complex biallelic single nucleotide polymorphism (SNP) disease models…

Generates complex biallelic single nucleotide polymorphism (SNP) disease models for simulation studies. GAMETES rapidly and precisely generates random, pure, strict n-locus models with specified…

HAPGEN
Desktop

HAPGEN

Simulates multiple nearby disease SNPs on the same chromosome. The new method,…

Simulates multiple nearby disease SNPs on the same chromosome. The new method, HAPGEN2, retains many advantages of resampling methods and expands the range of disease models that current simulators…

GWAsimulator
Desktop

GWAsimulator

A rapid moving-window algorithm to simulate genotype data for case-control or…

A rapid moving-window algorithm to simulate genotype data for case-control or population samples from genomic SNP chips. For case-control data, GWAsimulator generates cases and controls according to…

SITDEM
Web

SITDEM

A simulation tool for disease/endpoint models of association studies based on…

A simulation tool for disease/endpoint models of association studies based on single nucleotide polymorphism genotypes. SITDEM is designed to simulate disease/endpoint models based on SNP genotypes.

SIMLA
Desktop

SIMLA SIMulation of Linkage and Association

Generates data sets of families for use in Linkage and Association studies.…

Generates data sets of families for use in Linkage and Association studies. SIMLA allows the user flexibility in specifying marker and disease placement, locus heterogeneity, disequilibrium between…

simuGWAS
Desktop

simuGWAS

Simulates realistic samples for genome-wide association studies (GWAS).…

Simulates realistic samples for genome-wide association studies (GWAS). simuGWAS simulates populations that closely resemble the complex structure of the human genome, while allows the introduction…

phenosim
Desktop

phenosim

A software tool to add a phenotype to genotypes generated in time-efficient…

A software tool to add a phenotype to genotypes generated in time-efficient coalescent simulations. Both qualitative and quantitative phenotypes can be generated and it is possible to partition…

SIBSIM
Desktop

SIBSIM

Simulates genotype and quantitative trait data in extended pedigrees. SIBSIM is…

Simulates genotype and quantitative trait data in extended pedigrees. SIBSIM is as highly scalable as possible to meet any needs. It may not only be used in simulation studies, but also in the…

Pathsimu
Desktop

Pathsimu

Provides a flexible simulating tool for pathway-based genome-wide association…

Provides a flexible simulating tool for pathway-based genome-wide association studies using real genetic data from the HapMap project or users. Pathsimu can simultaneously simulate multiple…

HAP-SAMPLE
Web

HAP-SAMPLE

Allows a considerable flexibility in disease models, potentially involving a…

Allows a considerable flexibility in disease models, potentially involving a large number of interacting loci. HAP-SAMPLE is a web application for simulating single nucleotide polymorphism (SNP)…

DBSIM
Dataset

DBSIM

A platform for sharing simulation data and discussion of simulation techniques…

A platform for sharing simulation data and discussion of simulation techniques for human genetic studies. DBSIM contains simulation scripts, simulated data, and documentations from published…

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