simcares: Results of SIMCA one-class classification

In svkucheryavski/mdatools: Multivariate Data Analysis for Chemometrics

Results of SIMCA one-class classification

Description

@description simcares is used to store results for SIMCA one-class classification.

Usage

simcares(class.res, pca.res = NULL)

Arguments

class.res	results of classification (class classres).
pca.res	results of PCA decomposition of data (class pcares).

Details

Class simcares inherits all properties and methods of class pcares, and has additional properties and functions for representing of classification results, inherited from class classres.

There is no need to create a simcares object manually, it is created automatically when build a SIMCA model (see simca) or apply the model to a new data (see predict.simca). The object can be used to show summary and plots for the results.

Value

Returns an object (list) of class simcares with the same fields as pcares plus extra fields, inherited from classres:

c.pred	predicted class values (+1 or -1).
c.ref	reference (true) class values if provided.

The following fields are available only if reference values were provided.

tp	number of true positives.
fp	nmber of false positives.
fn	number of false negatives.
specificity	specificity of predictions.
sensitivity	sensitivity of predictions.

See Also

Methods for simcares objects:

print.simcares	shows information about the object.
summary.simcares	shows statistics for results of classification.

Methods, inherited from classres class:

showPredictions.classres	show table with predicted values.
plotPredictions.classres	predicted classes plot.
plotSensitivity.classres	sensitivity plot.
plotSpecificity.classres	specificity plot.
plotPerformance.classres	performance plot.

Methods, inherited from ldecomp class:

plotResiduals.ldecomp	makes Q2 vs. T2 residuals plot.
plotScores.ldecomp	makes scores plot.
plotVariance.ldecomp	makes explained variance plot.
plotCumVariance.ldecomp	makes cumulative explained variance plot.

Check also simca and pcares.

Examples

## make a SIMCA model for Iris setosa class and show results for calibration set
library(mdatools)

data = iris[, 1:4]
class = iris[, 5]

# take first 30 objects of setosa as calibration set
se = data[1:30, ]

# make SIMCA model and apply to test set
model = simca(se, 'Se')
model = selectCompNum(model, 1)

# show infromation and summary
print(model$calres)
summary(model$calres)

# show plots
layout(matrix(c(1,1,2,3), 2, 2, byrow = TRUE))
plotPredictions(model$calres, show.labels = TRUE)
plotResiduals(model$calres, show.labels = TRUE)
plotPerformance(model$calres, show.labels = TRUE, legend.position = 'bottomright')
layout(1, 1, 1)

# show predictions table
showPredictions(model$calres)

svkucheryavski/mdatools documentation built on Aug. 25, 2023, 12:27 p.m.