inst/unitTests/test_EnrichmentPValueCalculation.R

In CausalR: Causal network analysis methods

# A test suite for EnrichmentPValueCalculation

test_CalculateEnrichmentPValueProducesTheCorrectValueWhenResultsAndPredictionsContainTheSameIDs <- function() {
    predictions <- matrix(c(1, 2, 3, 4, 5, 1, 0, 0, 1, 0), ncol = 2)
    results <- matrix(c(1, 2, 3, 4, 5, 1, 0, 0, -1, 1), ncol = 2)
    checkEquals(CausalR:::CalculateEnrichmentPValue(predictions, results), 0.3)
}

test_CalculateEnrichmentPValueProducesTheCorrectValueWhenPredictionsAndResultsIDsAreMisMatched <- function() {
    predictions <- matrix(c(1, 2, 4, 5, 1, -1, -1, 1), ncol = 2)
    results <- matrix(c(1, 2, 3, 4, 1, -1, 0, 0), ncol = 2)
    checkEquals(CausalR:::CalculateEnrichmentPValue(predictions, results), 0.5)
}

test_GetSetOfDifferentiallyExpressedGenesIdentifiesTheCorrectGenes <- function() {
    results <- matrix(c(1, 2, 3, 4, 1, 1, 0, -1), ncol = 2)
    differentiallyExpressedGenes <- CausalR:::GetSetOfDifferentiallyExpressedGenes(results)
    checkEquals(length(differentiallyExpressedGenes), 3)
    checkEquals(differentiallyExpressedGenes[1], 1)
    checkEquals(differentiallyExpressedGenes[2], 2)
    checkEquals(differentiallyExpressedGenes[3], 4)
}

test_GetSetOfSignificantPredictionsIdentifiesTheCorrectValues <- function() {
    predictions <- matrix(c(1, 2, 3, 4, 1, 0, -1, -1), ncol = 2)
    significantPredictions <- CausalR:::GetSetOfSignificantPredictions(predictions)
    checkEquals(length(significantPredictions), 3)
    checkEquals(significantPredictions[1], 1)
    checkEquals(significantPredictions[2], 3)
    checkEquals(significantPredictions[3], 4)
}