summary.permax {permax}R Documentation

Summarizes the output of permax()

Description

Finds and prints the most significant genes in the output of permax()

Usage

summary.permax(Z, data, nl=25, nr=25, dig=3)

Arguments

Z A dataframe of class permax (created by permax())
data The data matrix used as input to permax. If given, the rows of d corresponding to the most significant genes will also be printed.
nl The nl most significant genes in the lower tail will be printed
nr The nr most significant genes in the upper tail will be printed
dig Number of significant digits in the printed output (roughly) Returns a list with components lower giving the row.names() of Z corresponding to the nl most significant genes in the upper tail, and upper giving the nr most significant genes in the upper tail.

Details

If d is given, it must be a data frame with row.names(d) corresponding to row.names(Z), or a matrix with dimnames(d)[[1]] corresponding to row.names(Z). The purpose of including d is primarily to print the rows of the original data corresponding to the most significant statistics.

See Also

permax

Examples

# An example is given in the permax help file