coercions: Coercion methods

In theislab/destiny: Creates diffusion maps

Coercion methods

Description

Convert a DiffusionMap or DPT object to other classes

Usage

## S4 method for signature 'DiffusionMap'
as.data.frame(x, row.names = NULL, optional = FALSE, ...)

fortify.DiffusionMap(model, data, ...)

## S4 method for signature 'DPT'
as.data.frame(x, row.names = NULL, optional = FALSE, ...)

fortify.DPT(model, data, ...)

## S4 method for signature 'DPT'
as.matrix(x, ...)

Arguments

x, model	A DiffusionMap or DPT object
row.names	NULL or a character vector giving the row names for the data frame. Missing values are not allowed.
optional	logical. If TRUE, setting row names and converting column names (to syntactic names: see make.names) is optional.
...	Passed to as.data.frame
data	ignored

Details

fortify is a ggplot2 generic allowing a diffusion map to be used as data parameter in ggplot or qplot.

Value

An object of the desired class

See Also

DiffusionMap accession methods, Extraction methods, DiffusionMap methods for more

Examples

library(Biobase)
data(guo)
dm <- DiffusionMap(guo)
classes <- vapply(as.data.frame(dm), class, character(1L))
stopifnot(all(classes[paste0('DC', 1:20)] == 'numeric'))
stopifnot(all(classes[featureNames(guo) ] == 'numeric'))
stopifnot(all(classes[   varLabels(guo) ] == c('factor', 'integer')))

theislab/destiny documentation built on Nov. 19, 2024, 5:43 a.m.