qvalue {webbioc} | R Documentation |
Applies the q-value multiple testing procedure to a group of unadjusted p-values.
qvalue(p, lambda=seq(0,0.95,0.05), pi0.meth="smoother", fdr.level=NULL, robust=F)
p |
a vector of p-values |
fdr.level |
a level at which to control the FDR |
lambda |
the value of the tuning parameter to estimate pi0 |
pi0.meth |
either "smoother" or "bootstrap"; the method for automatically choosing tuning parameter in the estimation of pi0, the proportion of true null hypotheses |
robust |
an indicator of whether it is desired to make the estimate more robust for small p-values and a direct finite sample estimate of pFDR |
call |
gives the function call |
pi0 |
an estimate of the proportion of null p-values |
qvalues |
a vector of the estimated q-values (the main quantity of interest) |
pvalues |
a vector of the original p-values |
significant |
if fdr.level is specified, and indicator of whether the q-value fell below fdr.level (taking all such q-values to be significant controls FDR at level fdr.level) |
John D. Storey http://faculty.washington.edu/~jstorey/
Storey JD. (2002) A direct approach to false discovery rates. Journal of the Royal Statistical Society, Series B, 64: 479-498.