DistanceMatrix: 'DistanceMatrix'

View source: R/distancematrix.R

DistanceMatrixR Documentation

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 Aug. 19, 2024, 9:29 p.m.