plotAutoencoderAssessment: Plot total variance of different neural networks
In theMILOlab/SPATA2: A Toolbox for Spatial Expression Analysis

plotAutoencoderAssessment

R Documentation

Plot total variance of different neural networks

Description

Visualizes the results of assessAutoencoderOptions() by displaying the total variance of each combination of an activation function (such as relu, sigmoid) and the number of bottleneck neurons.

The results depend on further adjustments like number of layers, dropout and number of epochs.

Usage

plotAutoencoderAssessment(
  object,
  activation_subset = NULL,
  clrp = NULL,
  verbose = NULL
)

Arguments

object

An object of class SPATA2 or, in case of S4 generics, objects of classes for which a method has been defined.

clrp

Character value. Specifies the color palette to be used to represent groups of discrete variables. Run validColorPalettes() to obtain valid input options.

verbose

Logical. If TRUE, informative messages regarding the computational progress will be printed.

(Warning messages will always be printed.)