ribiosUtils (version 1.7.7)

pScore: Transform p-values to continuous scores

Description

The function wraps other functions to map p values ranging on \((0,1]\) to continuous scores ranging on \(R\) in a number of ways.

Usage

pScore(p, sign = 1, method = c("qnorm", "absLog10"), replaceZero = TRUE)

Value

A numeric vector of transformed p-values using the specified method.

Arguments

p

p-value between (0,1]

sign

Sign of the score, either positive (in case of positive numbers), negative (in case of negative numbers), or zero. In case a logical vector, TRUE is interpreted as positive and FALSE is interpreted as negative.

method

Currently available methods include qnorm and absLog10.

replaceZero

Logical, whether to replace zero p-values with the minimal double value specified by the machine. Default is TRUE. If set to FALSE, results will contain infinite values.

See Also

pAbsLog10Score, pQnormScore

Examples

testPvals <- c(0.001, 0.01, 0.05, 0.1, 0.5, 1)
pScore(testPvals, method="absLog10")
pScore(testPvals, method="qnorm")
testPvalSign <- rep(c(-1,1), 3)
pScore(testPvals, sign=testPvalSign, method="absLog10")
pScore(testPvals, sign=testPvalSign, method="qnorm")
testLog <- rep(c(TRUE, FALSE),3)
pScore(testPvals, testLog, method="absLog10")
pScore(testPvals, testLog, method="qnorm")

testPvals <- 10^seq(-5, 0, 0.05)
plot(pScore(testPvals, method="qnorm"),
     pScore(testPvals, method="absLog10"),
     xlab="pQnormScore", ylab="pAbsLog10Score"); abline(0,1, col="red", lty=2)