DistanceMatrix: 'DistanceMatrix'

In Displayr/flipDimensionReduction: Algorithms for dimension reduction

DistanceMatrix

Description

Compute a distance (dissimilarity) or similarity matrix between variables or cases.

Usage

DistanceMatrix(
  input.data,
  compare = "Variables",
  case.labels = NULL,
  variable.names = FALSE,
  binary = FALSE,
  measure = "Dissimilarities",
  similarity.measure = "Correlation",
  distance.measure = "Euclidian",
  minkowski = 2,
  standardization = "None",
  standardize.by = "Case",
  measure.transformation = "None",
  show.cell.values = "Automatic",
  show.row.labels = "Yes",
  show.column.labels = "Yes",
  subset = NULL,
  weights = NULL
)

Arguments

input.data	A data.frame with cases as rows and variables as columns.
compare	Whether "Variables" or "Cases" are to be compared.
case.labels	If "compare" is set to "Cases", a list of labels for each case. If not supplied the indices are used.
variable.names	Whether to display variable names or labels.
binary	Whether to convert categorical variables to binary.
measure	Whether to measure "Similarities" or "Dissimilarities".
similarity.measure	How to calculate similarities. Options are "Correlation" or "Cosine".
distance.measure	The method for mesuring distances. Options are "Euclidean", "Squared Euclidean", "Maximum", "Manhattan" and "Minkowski".
minkowski	The power used by "Minkowski" "distance.measure".
standardization	The method used to standardize the data. Options are "None", "z-scores", "Range [-1,1]", "Range [0,1]", "Mean of 1" and "Standard deviation of 1".
standardize.by	Whether to perform "standardization" by "Variable" or by "Case".
measure.transformation	How to transform the measure. Options are "None", "Absolute values", "Reverse sign", and "Range [0,1]".
show.cell.values	Whether to show cell values on heatmap output. Choices are "Automatic", "Yes" and "No".
show.row.labels	"Yes" or "No".
show.column.labels	"Yes" or "No".
subset	An optional vector specifying a subset of cases to be used.
weights	An optional vector of sampling weights.

Displayr/flipDimensionReduction documentation built on March 2, 2024, 3:50 a.m.