maigesANOVA-class: maigesANOVA class, extend maiges class to fit ANOVA models

In maigesPack: Functions to handle cDNA microarray data, including several methods of data analysis

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 <[e-mail]>

See Also

designANOVA, deGenesANOVA.

maigesPack documentation built on Nov. 8, 2020, 6:23 p.m.