dimRed: plot_R_NX – R documentation

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plot_R_NX

Description

Plot the R_NX curve for different embeddings. Takes a list of dimRedResult objects as input. Also the Area under the curve values are computed for a weighted K (see AUC_lnK_R_NX for details) and appear in the legend.

Usage

plot_R_NX(x, ndim = NA, weight = "inv")

Arguments

`x`	a list of `dimRedResult` objects. The names of the list will appear in the legend with the AUC_lnK value.
`ndim`	the number of dimensions, if `NA` the original number of embedding dimensions is used, can be a vector giving the embedding dimensionality for each single list element of `x`.
`weight`	the weight function used for K when calculating the AUC, one of `c("inv", "log", "log10")`

Value

A ggplot object, the design can be changed by appending theme(...)

Examples

## define which methods to apply
embed_methods <- c("Isomap", "PCA")
## load test data set
data_set <- loadDataSet("3D S Curve", n = 200)
## apply dimensionality reduction
data_emb <- lapply(embed_methods, function(x) embed(data_set, x))
names(data_emb) <- embed_methods
## plot the R_NX curves:
plot_R_NX(data_emb) +
    ggplot2::theme(legend.title = ggplot2::element_blank(),
                   legend.position = c(0.5, 0.1),
                   legend.justification = c(0.5, 0.1))

dimRed

A Framework for Dimensionality Reduction

v0.2.3

GPL-3 | file LICENSE

Authors

Guido Kraemer [aut, cre]

Initial release