build_models: Generate a deSet object with full and null models
In jdstorey/edge: Extraction of Differential Gene Expression

Description Usage Arguments Value Author(s) See Also Examples

build_models creates a deSet object. The user inputs the full and null models.

1	build_models(data, cov, full.model = NULL, null.model = NULL, ind = NULL)

`data`	`matrix`: gene expression data.
`cov`	`data.frame`: the covariates in the study.
`full.model`	`formula`: the adjustment and the biological variables of interest.
`null.model`	`formula`: the adjustment variables.
`ind`	`factor`: individuals sampled in the study. Default is NULL. Optional.

deSet object

John Storey, Andy Bass

deSet, build_study

# create ExpressionSet object from kidney dataset
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)