Estimate the inflation factor for a distribution of P-values or 1df chi-square test. The major use of this procedure is the Genomic Control, but can also be used to visualise the distribution of P-values coming from other tests. Methods implemented include 'median' (median(chi2)/0.455...), regression (of observed onto expected) and 'KS' (optimizing the chi2.1df distribution fit by use of Kolmogorov-Smirnov test)
estlambda(data, plot = FALSE, proportion = 1, method = "regression", filter = TRUE, df = 1, ...)
- A vector of reals. If all are <=1, it is assumed that this is a vector of P-values, else it is treated as a vector of chi-squares
- Whether the plot should be shown or not (default).
- The proportion of lowest P (or chi^2) values to be used when estimating the inflation factor lambda.
- "regression" (default), "median", or "KS": method to be used for lambda estimation.
- if the test statistics with 0-value of chi^2 should be excluded prior to estimation of lambda.
- Number of degrees of freedom.
- arguments passed to the
A list with elements
- Estimate of lambda
- Standard error of the estimate
Documentation reproduced from package GenABEL, version 1.8-0. License: GPL (>= 2)