Simulate Complex Traits from Genotypes

Simulate complex traits given a SNP genotype matrix and model parameters (the desired heritability, number of causal loci, and either the true ancestral allele frequencies used to generate the genotypes or the mean kinship for a real dataset). Emphasis on avoiding common biases due to the use of estimated allele frequencies. The code selects random loci to be causal, constructs coefficients for these loci and random independent non-genetic effects. Traits can follow three models: random coefficients, fixed effect sizes, and infinitesimal (multivariate normal). GWAS method benchmarking functions are also provided. Partially described in Yao and Ochoa (2019) .


Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.


1.0.21 by Alejandro Ochoa, 5 months ago

Report a bug at

Browse source code at

Authors: Alejandro Ochoa [aut, cre]

Documentation:   PDF Manual  

GPL-3 license

Imports PRROC

Suggests popkin, testthat, knitr, rmarkdown, bnpsd, BEDMatrix

See at CRAN