An S4 class to represent a scored spectrum

Description

An S4 class to represent a scored spectrum

Getter Method spectrumAdjRSquared

Getter Method spectrumDegree

Getter Method spectrumResiduals

Getter Method spectrumSlope

Getter Method spectrumFStatistic

Getter Method spectrumFStatisticPValue

Getter Method spectrumConsistencyScore

Getter Method spectrumConsistencyScorePValue

Getter Method spectrumConsistencyScoreN

Usage

spectrumAdjRSquared(object)

## S4 method for signature 'SpectrumScore'
spectrumAdjRSquared(object)

spectrumDegree(object)

## S4 method for signature 'SpectrumScore'
spectrumDegree(object)

spectrumResiduals(object)

## S4 method for signature 'SpectrumScore'
spectrumResiduals(object)

spectrumSlope(object)

## S4 method for signature 'SpectrumScore'
spectrumSlope(object)

spectrumFStatistic(object)

## S4 method for signature 'SpectrumScore'
spectrumFStatistic(object)

spectrumFStatisticPValue(object)

## S4 method for signature 'SpectrumScore'
spectrumFStatisticPValue(object)

spectrumConsistencyScore(object)

## S4 method for signature 'SpectrumScore'
spectrumConsistencyScore(object)

spectrumConsistencyScorePValue(object)

## S4 method for signature 'SpectrumScore'
spectrumConsistencyScorePValue(object)

spectrumConsistencyScoreN(object)

## S4 method for signature 'SpectrumScore'
spectrumConsistencyScoreN(object)

## S4 method for signature 'SpectrumScore'
show(object)

## S4 method for signature 'SpectrumScore,ANY'
plot(x)

Arguments

Value

Object of type SpectrumScore

Slots

adj.r.squared

adjusted R^2 of polynomial model

degree

degree of polynomial (integer between 0 and 5)

residuals

residuals of the polynomial model

slope

coefficient of the linear term of the polynomial model (spectrum "direction")

f.statistic

F statistic from the F test used to determine the degree of the polynomial model

f.statistic.p.value

p-value associated with the F statistic

consistency.score

raw local consistency score of the spectrum

consistency.score.p.value

p-value associated with the local consistency score

consistency.score.n

number of permutations performed to calculate p-value of local consistency score (permutations performed before early stopping criterion reached)

plot

spectrum plot

Examples

new("SpectrumScore", adj.r.squared = 0,
    degree = 0L,
    residuals = 0,
    slope = 0,
    f.statistic = 0,
    f.statistic.p.value = 1,
    consistency.score = 1,
    consistency.score.p.value = 1,
    consistency.score.n = 1000L,
    plot = NULL
)