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Save a Plot of Fuzzy C-Means Cluster Trajectories

plot_cmeans.Rd

Essentially, a ggplot2 version of Mfuzz::plot.mfuzz2 with a different color scheme that saves a plot to a file, rather than displaying it.

Usage

plot_cmeans(
  FCM,
  filename,
  keep_clusters,
  min_membership = 0,
  common_ylim = TRUE,
  ncol = 4L,
  dpi = 250,
  modality = c("both", "Endur", "Resist")
)

Arguments

FCM

one of the elements of the list produced by run_cmeans. See examples.

filename

File name to create on disk.

keep_clusters

integer; the identifier numbers of clusters to include in the plot. Defaults to all clusters.

min_membership

numeric; to be included in the plot, the probability that a feature belongs to a cluster should be \(\geq\) min_membership.

common_ylim

logical; whether the plots for each cluster should have the same y-axis limits.

ncol

integer; the maximum number of clusters to place on a single row. The number of rows is determined automatically.

dpi

Plot resolution. Also accepts a string input: "retina" (320), "print" (300), or "screen" (72). Only applies when converting pixel units, as is typical for raster output types.

modality

character; which exercise modalities should be used for plotting? One of "both", "Endur", or "Resist".

See also

run_cmeans

Author

Tyler Sagendorf

Examples

if (FALSE) { # \dontrun{
# FCM results
FCM <- run_cmeans(selected_tissues = "adipose")

plot_cmeans(FCM = FCM[["adipose"]],
            filename = "adipose_clusters.pdf",
            min_membership = 0.3)
} # }