Description Usage Arguments Value References See Also
Summary of threshold results.
1 2 3  filter.threshold(cross, pheno.col, latent.eff, res.var, lod.thrs, drop.lod = 1.5,
s.quant, n.perm, alpha.levels, qh.thrs, ww.thrs, addcovar = NULL,
intcovar = NULL, verbose = FALSE, ...)

cross 
object of class 
pheno.col 
phenotype columns used for filtering thresholds 
latent.eff 
ratio of latent effect SD to residual SD 
res.var 
residual variance (=SD^2) 
lod.thrs 
LOD threshold values for range of significance (alpha) levels 
drop.lod 
LOD drop from max LOD to keep in analysis 
s.quant 
vector of 
n.perm 
number of permutations 
alpha.levels 
range of significance levels; same length as 
qh.thrs 
Results of call to 
ww.thrs 
Results of call to 
addcovar 
additive covariates as vector or matrix; see 
intcovar 
interactive covariates as vector or matrix; see 
verbose 
verbose output if 
... 
arguments passed along to 
List with items
NL.thrs 

N.thrs 

WW.thrs 

NL 

N.counts 

WW.counts 
Manichaikul A, Dupuis J, Sen S, Broman KW (2006) Poor performance of bootstrap confidence intervals for the location of a quantitative trait locus. Genetics 174: 481489.
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