model: Object constructor for binary predictors

In MLPA: Multiplex Ligation-Dependent Probe Amplification Data Analysis

Description

This function aggregates the data required to predict class in classify.

Usage

  model(groupMeans, groupSDs, groupNames, groupColors = c("blue", "red"),
    threshold = 0.9, geneNames, geneTs, geneMs)

Arguments

groupMeans	Numeric vector of length 2, the means of the scores in each group as computed on a training series.
groupSDs	Numeric vector of length 2, the standard deviations of the scores in each group as computed on a training series.
groupNames	Character vector of length 2, the names of the group described in groupMeans, groupSDs and groupColors.
groupColors	Character vector of length 2, the colors to use to plot each group (see par for allowed values).
threshold	Single numeric vector, the confidence threshold to use for prediction (a call will be made only if it is at least at this level of certainty).
geneNames	Character vector, the names of the genes whose expression is to be used.
geneTs	Numeric vector, for each gene in geneNames, the statistic of a t.test comparing its expression between the two groups in a training series.
geneMs	Numeric vector, for each gene in geneNames, the mean expression in the whole training series.

Value

Returns an S3 object of class fsaModel.

Author(s)

Sylvain Mareschal

See Also

classify

Examples

  # Build from design file
  design <- designFile(system.file("extdata/design.conf", package="MLPA"))
  design$model$disable <- NULL
  model <- do.call("model", design$model)
  
  # Observe model
  print(model)
  plot(model)

MLPA documentation built on May 2, 2020, 1:06 a.m.