fullMatrix: Matrix representation of full model

In edge: Extraction of Differential Gene Expression

Description

These generic functions access and set the full matrix for deSet object.

Usage

fullMatrix(object)

fullMatrix(object) <- value

## S4 method for signature 'deSet'
fullMatrix(object)

## S4 replacement method for signature 'deSet'
fullMatrix(object) <- value

Arguments

object	S4 object: deSet
value	matrix: full model matrix where the columns are the covariates and rows are observations

Value

fullMatrix returns the value of the full model matrix.

Author(s)

Andrew Bass, John Storey

See Also

deSet, fullModel

Examples

# import data
library(splines)
data(kidney)
age <- kidney$age
sex <- kidney$sex
kidexpr <- kidney$kidexpr
cov <- data.frame(sex = sex, age = age)

# create models
null_model <- ~sex
full_model <- ~sex + ns(age, df = 4)

# create deSet object from data
de_obj <- build_models(data = kidexpr, cov = cov, null.model = null_model,
full.model = full_model)

# extract the full model equation as a matrix
mat_full <- fullMatrix(de_obj)

edge documentation built on Nov. 8, 2020, 6:48 p.m.