stop_cmdscale {stops}

STOPS version of strain

Description

The free parameter is lambda for power transformations of the observed proximities.

Usage

stop_cmdscale(
  dis,
  theta = 1,
  type = "ratio",
  weightmat = NULL,
  ndim = 2,
  init = NULL,
  ...,
  stressweight = 1,
  structures = c("cclusteredness", "clinearity", "cdependence", "cmanifoldness",
    "cassociation", "cnonmonotonicity", "cfunctionality", "ccomplexity", "cfaithfulness",
    "cregularity", "chierarchy", "cconvexity", "cstriatedness", "coutlying",
    "cskinniness", "csparsity", "cstringiness", "cclumpiness", "cinequality"),
  strucweight = rep(1/length(structures), length(structures)),
  strucpars,
  verbose = 0,
  stoptype = c("additive", "multiplicative"),
  itmaxi = 1000,
  add = TRUE
)

Arguments

dis

numeric matrix or dist object of a matrix of proximities

theta

the theta vector of powers; this must be a scalar of the lambda transformation for the observed proximities.

type

MDS type. Ignored here.

weightmat

(optional) a matrix of nonnegative weights. Not used.

ndim

number of dimensions of the target space

init

(optional) initial configuration

...

additional arguments to be passed to the fitting procedure

stressweight

weight to be used for the fit measure; defaults to 1

structures

which structuredness indices to be included in the loss

strucweight

weight to be used for the structuredness indices; ; defaults to 1/#number of structures

strucpars

the parameters for the structuredness indices

verbose

numeric value hat prints information on the fitting process; >2 is extremely verbose

stoptype

How to construct the target function for the multi objective optimization? Either 'additive' (default) or 'multiplicative'

itmaxi

number of iterations. No effect here.

add

if TRUE dis is made to Euclidean disatnces

Value

A list with the components

• stress: the badness-of-fit value (this isn't stress here but 1-(sum_ndim(max(eigenvalues,0))/sum_n(max(eigenvalues,0)), 1-GOF[2])

• stress.m: explictly normalized stress (manually calculated)

• stoploss: the weighted loss value

• indices: the values of the structuredness indices

• parameters: the parameters used for fitting (lambda)

• fit: the returned object of the fitting procedure, which is cmdscalex object with some extra slots for the parameters and stresses

• stopobj: the stopobj object