FULL NAME:A Genome-Wide-Association-Study Simulation Tool for Genotype Simulation, Phenotype Simulation, and Power Evaluation
YEAR:2019
DESCRIPTION:a Genome-Wide-Association-Study simulation tool for genotype simulation, phenotype simulation and power evaluation
CITATION:Tang, You, and Xiaolei Liu. "G2P: a genome-wide-association-study simulation tool for genotype simulation, phenotype simulation and power evaluation." Bioinformatics 35.19 (2019): 3852-3854.
URL: https://github.com/XiaoleiLiuBio/G2P
SIMER
SHORT NAME:SIMER
FULL NAME:Data Simulation for Life Science and Breeding
DESCRIPTION: Data Simulation for Life Science and Breeding
DESCRIPTION: a fast method for simulation of large scale case–control GWAS summary statistics
URL: https://github.com/chr1swallace/simGWAS
CITATION:Fortune, Mary D., and Chris Wallace. "simGWAS: a fast method for simulation of large scale case–control GWAS summary statistics." Bioinformatics 35.11 (2019): 1901-1906.
HAPGEN2
SHORT NAME:HAPGEN2
FULL NAME:HAPGEN2
YEAR:2011
DESCRIPTION:HAPGEN2 is a an updated version of the program HAPGEN, which simulates case control datasets at SNP markers. The new version can now simulate multiple disease SNPs on a single chromosome, on the assumption that each disease SNP acts independently and are in Hardy-Weinberg equilibrium. We also supply a R package that can simulate interaction between the disease SNPs.
CITATION:Su, Zhan, Jonathan Marchini, and Peter Donnelly. "HAPGEN2: simulation of multiple disease SNPs." Bioinformatics 27.16 (2011): 2304-2305.
DESCRIPTION:a user-friendly genetic variant simulator in R for unrelated individuals and family-based designs
CITATION:Dimitromanolakis, Apostolos, et al. "sim1000G: a user-friendly genetic variant simulator in R for unrelated individuals and family-based designs." BMC bioinformatics 20.1 (2019): 1-9.
DESCRIPTION: A python software leveraging real genotype data to simulate a complex trait as a function of latent expression, fit eQTL weights in independent data, and perform GWAS/TWAS on the complex trait.
URL: https://github.com/mancusolab/twas_sim
CITATION:Wang, X., Lu, Z., Bhattacharya, A., Pasaniuc, B., & Mancuso, N. (2023). twas_sim, a Python-based tool for simulation and power analysis of transcriptome-wide association analysis. Bioinformatics, btad288.