cutOffPval: Find cut off for p-values enriched in values close to 1

In ludgergoeminne/MSqRob: Robust statistical inference for quantitative LC-MS proteomics

Find cut off for p-values enriched in values close to 1

Description

Contrast tests based on mixed models often produce p-values containing an excess of values close to 1. This function will, given a vector of p-values find a cut-off above which the values are excessively enriched. The cut-off is determined based on the difference coefficient and 2nd order difference coefficient of sequential p-values. Therefore, it will (almost) always find a cut-off, even if there is no real enrichment in p-values. One should thus always assess whether there is truly an enrichment when using this function.

Usage

cutOffPval(p)

Arguments

p	A vector of p-values.

Value

A named vector with two values: "cutoff_l", the maximal p-value below the cut-off and "cutoff_u", the minimal p-value that is above the cut-off.

Examples

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ludgergoeminne/MSqRob documentation built on Jan. 11, 2023, 1:32 p.m.