Moanin-methods: Helper methods for the Moanin class

In NelleV/moanin: An R Package for Time Course RNASeq Data Analysis

Description

This is a collection of helper methods for the Moanin class.

Usage

## S4 method for signature 'Moanin'
group_variable_name(object)

## S4 replacement method for signature 'Moanin'
group_variable_name(object) <- value

## S4 method for signature 'Moanin'
time_by_group_variable(object)

## S4 method for signature 'Moanin'
group_variable(object)

## S4 replacement method for signature 'Moanin'
group_variable(object) <- value

## S4 method for signature 'Moanin'
time_variable_name(object)

## S4 replacement method for signature 'Moanin'
time_variable_name(object) <- value

## S4 method for signature 'Moanin'
time_variable(object)

## S4 replacement method for signature 'Moanin'
time_variable(object) <- value

## S4 method for signature 'Moanin'
degrees_of_freedom(object)

## S4 method for signature 'Moanin'
basis_matrix(object)

## S4 method for signature 'Moanin'
spline_formula(object)

## S4 method for signature 'Moanin'
show(object)

## S4 method for signature 'Moanin,ANY,character,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'Moanin,ANY,logical,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'Moanin,ANY,numeric,ANY'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'Moanin'
log_transform(object)

## S4 method for signature 'Moanin'
get_log_data(object)

Arguments

object	An object of class Moanin, an object containing all related information for time course data and the splines model that will be used (if applicable). See create_moanin_model for more details.
value	replacement value
x	Moanin object
i, j	A vector of logical or integer subscripts, indicating the rows and columns to be subsetted for i and j, respectively.
...	arguments passed to subsetting
drop	A logical scalar that is ignored.

Details

Note that when subsetting the data, the dendrogram information and the co-clustering matrix are lost.

Value

group_variable_name and time_variable_name return the name of the column containing the variable. group_variable and time_variable return the actual variable.

Examples

# Load some data
data(exampleData)
moanin = create_moanin_model(data=testData,meta=testMeta)
group_variable_name(moanin)
time_variable_name(moanin)

NelleV/moanin documentation built on July 28, 2021, 7:34 p.m.