pandemonium (version 0.2.4)

makePlots: Generate a specified plot outside the GUI

Description

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(
  space1,
  settings,
  cov = NULL,
  covInv = NULL,
  exp = NULL,
  space2 = NULL,
  space2.cov = NULL,
  space2.covInv,
  space2.exp = NULL,
  user_dist = NULL,
  getCoordsSpace1 = normCoords,
  getCoordsSpace2 = normCoords,
  getScore = NULL
)

Value

ggplot, plotly or detourr plot depending on settings$plotType

Arguments

space1

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

space2

dataframe of variables in linked space

space2.cov

covariance matrix for space 2

space2.covInv

inverse covariance matrix for space 2

space2.exp

reference point in space 2

user_dist

user defined distances

getCoordsSpace1

function to calculate coordinates in space 1

getCoordsSpace2

function to calculate coordinates in space 2

getScore

function to calculate scores and bins

Examples

makePlots(space1 = 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),
      space2 = Bikes$space2, getScore = outsidescore(Bikes$other$res,"Residual"))

makePlots(space1 = 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), space2 = Bikes$space2,
      getScore = outsidescore(Bikes$other$res,"Residual"))