maigesANOVA-class {maigesPack} | R Documentation

## maigesANOVA class, extend maiges class to fit ANOVA models

### Description

This class extends the class `maiges` adding two numerical matrices to fit ANOVA models and estimate parameters of interest. Additional to the existing slots of class `maiges` this class defines other two, described in Slots section.

### Details

This class of objects is exactly the same as `maiges` with the two slots described in Slots section. Objects of this class are generated from `maiges` class using the function `designANOVA`. So, it is possible to fit the model and estimate parameters or contrasts using the function `deGenesANOVA`.

### Slots

`Dmatrix`:

  numeric matrix describing the design matrix to fit an ANOVA model.

`Cmatrix`:

  numeric matrix describing the contrasts matrix to estimate parameters and contrasts of interest, after the model fitting.

### Methods

[

  `signature(x = 'maigesANOVA')`: sub-setting operator for spots on the array or arrays in the batch, ensures that all slots are subset properly.

boxplot

  `signature(x = 'maigesANOVA')`: boxplot method for `maigesANOVA` class. Display boxplots of the slides and print tip groups using package marray or boxplots of one gene previously defined.

dim

  `signature(x = 'maigesANOVA', value = 'numeric')`: get the dimensions of the object, numeric vector of length two.

image

  `signature(x = 'maigesANOVA')`: image method for `maigesANOVA` class. Display colour representation of the slides using package marray.

plot

  `signature(x = 'maigesANOVA')`: plot method for `maigesANOVA` class. Display 'MA' plots.

print

  `signature(x = 'maigesANOVA')`: print method for `maigesANOVA` class.

show

  `signature(x = 'maigesANOVA')`: show method for `maigesANOVA` class.

summary

  `signature(x = 'maigesANOVA')`: summary method for `maigesANOVA` class.

### Author(s)

Gustavo H. Esteves <gesteves@vision.ime.usp.br>

### See Also

`designANOVA`, `deGenesANOVA`.

[Package maigesPack version 1.56.0 Index]