CalculateSignificance: calculate overall significance p-value

In CausalR: Causal network analysis methods

Description

Calculates the p-value of a score given the hypothesis score and the distribution table, using either the quartic or the (faster) cubic algorithm

Usage

CalculateSignificance(hypothesisScore, predictionListStats,
  experimentalResultStats, epsilon = 1e-05, useCubicAlgorithm = TRUE,
  use1bAlgorithm = TRUE)

Arguments

hypothesisScore	score for a particular hypothesis
predictionListStats	numbers of predicted up-regulated, predicted down-regulated and ambiguous predictions predicted by the algorithm
experimentalResultStats	numbers of up-regulated, down-regulated and not significantly changed transcripts in the experimental data
epsilon	threshold that is used when calculating the p-value using the cubic algorithm
useCubicAlgorithm	use the cubic algorithm, defaults to TRUE
use1bAlgorithm	use the 1b version of the algorithm, defaults to TRUE used to calculate the p-value

Value

the resulting p-value

Examples

CalculateSignificance(5, c(7,4,19), c(6,6,18))
CalculateSignificance(5, c(7,4,19), c(6,6,18), useCubicAlgorithm=TRUE)
CalculateSignificanceUsingQuarticAlgorithm(5, c(7,4,19), c(6,6,18))
CalculateSignificance(5, c(7,4,19), c(6,6,18), useCubicAlgorithm=FALSE)
CalculateSignificance(5, c(7,4,19), c(6,6,18), 1e-5)
CalculateSignificance(5, c(7,4,19), c(6,6,18), epsilon=1e-5, useCubicAlgorithm=TRUE)
CalculateSignificanceUsingCubicAlgorithm(5, c(7,4,19), c(6,6,18), 1e-5)

CausalR documentation built on Nov. 8, 2020, 5:25 p.m.