maigesPack (version 1.36.0)

designANOVA: Function to construct design an contrasts matrices for ANOVA models

Description

This function takes an object of class maiges together with other arguments and construct the matrices of design and contrasts for adjusting ANOVA models. The design matrix are generated using the function model.matrix.

Usage

designANOVA(data=NULL, factors=names(data@Slabels), model=NULL, contrasts=NULL, ...)

Arguments

data

object of class maiges.

factors

vector of character strings specifying the sample labels IDs to be used as factors in the models.

model

a formula specifying the model to be fitted.

contrasts

character vector specifying the contrasts to be done. This is done by the function makeContrasts from package limma. Pay attention that we use the treatment-control parametrisation.

...

additional parameters for function model.matrix.

Value

The result of this function is an object of class maigesANOVA.

See Also

model.matrix, makeContrasts, deGenesANOVA.

Examples

## Loading the dataset
data(gastro)

## Constructing a maigesANOVA object for the 'Tissue' sample label using
## default model (simple linear model with intercept) and contrasts (all
## parameters are equal between themselves)
gastro.ANOVA = designANOVA(gastro.summ, factors="Tissue")
gastro.ANOVA