| simulU {simulMGF} | R Documentation |
Function to simulate a random SNP matrix, phenotype and QTLs with their effects
Description
This function simulate a SNP matrix (coded as 0, 1, 2) and traits with a selected number of QTLs and their effects that will be sampled from a Uniform distribution.
Usage
simulU(Nind, Nmarkers, Nqtl, Pmean, Perror)
Arguments
Nind |
number of individuals to simulate. |
Nmarkers |
number of SNP markers to generate. |
Nqtl |
number of QTLs controlling the trait. |
Pmean |
phenotype mean. |
Perror |
standard deviation of error (portion of phenotype not explained by genomic information). |
Value
An object of class list containing the SNP matrix, the trait, the markers associated and their effects.
geno |
SNP matrix generated. |
pheno |
vector with the trait values simulated. |
QTN |
column in the SNP matrix with the SNP associated. |
Meffects |
effects of the associated SNPs. |
Author(s)
Martin Nahuel Garcia <orcid:0000-0001-5760-986X>
References
Wu, R., Ma, C., & Casella, G. (2007). Statistical genetics of quantitative traits: linkage, maps and QTL. Springer Science & Business Media.
See Also
simGeno, simulN
Examples
set.seed(123)
simulU(100, 1000, 50, 12, .5)
#[1] "usimout was generated"
str(usimout)
#List of 4
#$ geno : num [1:100, 1:1000] 0 2 1 2 2 0 1 2 1 1 ...
#$ pheno : num [1:100, 1] 10.3 14.7 11.8 10.2 13.1 ...
#$ QTN : int [1:50] 568 474 529 349 45 732 416 51 413 514 ...
#$ Meffects: num [1:50] 0.2355 0.0158 -0.1369 -0.1246 0.7426 ...