plot.lcc: Plot a longitudinal consensus clustering

In cellmapslab/longmixr: Longitudinal Consensus Clustering with 'flexmix'

Plot a longitudinal consensus clustering

Description

Plot a longitudinal consensus clustering

Usage

## S3 method for class 'lcc'
plot(x, color_palette = NULL, which_plots = "all", n_item_consensus = 3, ...)

Arguments

x	lcc object (output from longitudinal_consensus_cluster)
color_palette	optional character vector of colors for consensus matrix
which_plots	determine which plots should be plotted; the default is "all". Alternatively, a combination of the following values can be specified to plot only some of the below mentioned plots: "consensusmatrix_legend", "consensusmatrix_x" where x is replaced by the corresponding number of clusters, "CDF", "delta", "cluster_tracking", "item_consensus" or "cluster_consensus". When you want to plot all consensus matrices and the legend, you can just use "consensusmatrix".
n_item_consensus	determines how many item consensus plots are plotted together in one plot before a new plot is used; the default is 3.
...	additional parameters for plotting; currently not used

Value

Plots the following plots (when selected):

consensus matrix legend	the legend for the following consensus matrix plots (select with "consensusmatrix_legend")
consensus matrix plot	for every specified number of clusters, a heatmap of the consensus matrix and the result of the final clustering is shown (select with "consensusmatrix_x" where x is replaced by the corresponding number of clusters)
consensus CDF	a line plot of the CDFs for all different specified numbers of clusters (select with "CDF")
Delta area	elbow plot of the difference in the CDFs between the different numbers of clusters (select with "delta")
tracking plot	cluster assignment of the subjects throughout the different cluster solutions (select with "cluster_tracking")
item-consensus	for every item (subject), calculate the average consensus value with all items that are assigned to one consensus cluster. This is repeated for every cluster and for all different numbers of clusters (select with "item_consensus")
cluster-consensus	every bar represents the average pair-wise item-consensus within one consensus cluster (select with "cluster_consensus")

cellmapslab/longmixr documentation built on Feb. 8, 2024, 4:44 a.m.