Generate a specified plot outside the GUI

An interface to generate a specific graph seen when using the GUI. Settings include: metric, linkage, k, plotType, for details see the vignette on using this function.

Usage

makePlots(
  cluster,
  settings,
  cov = NULL,
  covInv = NULL,
  exp = NULL,
  linked = NULL,
  linked.cov = NULL,
  linked.covInv,
  linked.exp = NULL,
  user_dist = NULL,
  getCoordsSpace1 = normCoords,
  getCoordsSpace2 = normCoords,
  getScore = NULL,
  results = NULL
)

Arguments

cluster

dataframe of variables in cluster space

settings

list specifying parameters usually selected in the app

cov

covariance matrix for space 1

covInv

inverse covariance matrix for space 1

exp

reference point in space 1

linked

dataframe of variables in linked space

linked.cov

covariance matrix for space 2

linked.covInv

inverse covariance matrix for space 2

linked.exp

reference point in space 2

user_dist

user defined distances

getCoordsSpace1

function to calculate coordinates in cluster space

getCoordsSpace2

function to calculate coordinates in linked space

getScore

function to calculate scores and bins

results

an output of makeResults(), used to reduce computation when many plots are made.

Value

ggplot, plotly or detourr plot depending on settings$plotType

Examples

makePlots(
  cluster = Bikes$space1,
  settings = list(
    plotType = "WC", x = "hum", y = "temp", k = 4, metric = "euclidean",
    linkage = "ward.D2", WCa = 0.5, showalpha = TRUE
  ), cov = cov(Bikes$space1),
  linked = Bikes$space2, getScore = outsideScore(Bikes$other$res, "Residual")
)


makePlots(
  cluster = Bikes$space1,
  settings = list(
    plotType = "tour", k = 4, metric = "euclidean", linkage = "ward.D2",
    tourspace = "space1", colouring = "clustering", out_dim = 2, tour_path = "grand",
    display = "scatter", radial_start = NULL, radial_var = NULL, slice_width = NULL, seed = 2025
  ),
  cov = cov(Bikes$space1), linked = Bikes$space2,
  getScore = outsideScore(Bikes$other$res, "Residual")
)