Given a set of permutations, return the significance thresholds on the autosomes and X chromosome.
Usage
get.sig.thr(perms, alpha = 0.05, Xchr = TRUE)
Arguments
perms
Numeric matrix with the maximum LOD (or maximum -log10(p-value)) from each permuation.
alpha
Numeric vector containing the alpha level of the significance thresholds.
Xchr
Logical value (default = TRUE) that indicates that the permutations contain
both autosomal and X chromosome thresholds.
Value
Numeric matrix containing the significance thresholds for the autosomes
in column 1 an dthe X chromossome in column 2.
References
The X chromosome in quantitative trait locus mapping.
Broman KW, Sen S, Owens SE, Manichaikul A, Southard-Smith EM, Churchill GA.
Genetics. 2006 Dec;174(4):2151-8.