estimatePvaluesSpearman: estimatePvaluesSpearman

In shazanfar/DCARS: Differential Correlation across Ranked Samples

Description

the estimatePvaluesSpearman function more accurately estimates p-values by taking into account the relationship between the global correlation and the distribution of the permuted Spearman-based DCARS test statistics.

Usage

estimatePvaluesSpearman(stats, globalCors, permstats, usenperm = FALSE,
  nperm = 10000, maxDist = 0.1, plot = FALSE, verbose = FALSE)

Arguments

stats	a named vector of observed DCARS test statistics, names should appear in names of globalCor
globalCors	a named vector containing global spearman correlation for each gene pair
permstats	a named list containing permuted test statistics, names should appear in names of globalCor
usenperm	logical to use number of permutations to select nearest genepairs
nperm	number of permutations, used is usenperm = TRUE
maxDist	numeric maximum difference in globalCor to consider for permutations, only used if usenperm = FALSE
plot	logical default FALSE, if TRUE plots the globalCor against mean of permuted test statistics, and shows fitted polynomial
verbose	logical default FALSE, if TRUE prints genepair names

Value

data.frame

shazanfar/DCARS documentation built on Oct. 14, 2020, 11:11 a.m.