cop_rstress: PCOPS version of rstress

In cops: Cluster Optimized Proximity Scaling

PCOPS version of rstress

Description

Free parameter is kappa=2r for the fitted distances.

Usage

cop_rstress(
  dis,
  theta = 1,
  type = "ratio",
  weightmat = 1 - diag(nrow(dis)),
  init = NULL,
  ndim = 2,
  itmaxi = 10000,
  ...,
  stressweight = 1,
  cordweight = 0.5,
  q = 1,
  minpts = ndim + 1,
  epsilon = 10,
  rang = NULL,
  verbose = 0,
  scale = "sd",
  normed = 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 kappa=2*r transformation for the fitted distances proximities. Defaults to 1. Note that what is returned is r, not kappa.
type	MDS type. Defaults to "ratio".
weightmat	(optional) a matrix of nonnegative weights
init	(optional) initial configuration
ndim	number of dimensions of the target space
itmaxi	number of iterations. default is 10000.
...	additional arguments to be passed to the fitting procedure
stressweight	weight to be used for the fit measure; defaults to 1
cordweight	weight to be used for the cordillera; defaults to 0.5
q	the norm of the cordillera; defaults to 1
minpts	the minimum points to make up a cluster in OPTICS; defaults to ndim+1
epsilon	the epsilon parameter of OPTICS, the neighbourhood that is checked; defaults to 10
rang	range of the distances (min distance minus max distance). If NULL (default) the cordillera will be normed to each configuration's maximum distance, so an absolute value of goodness-of-clusteredness.
verbose	numeric value hat prints information on the fitting process; >2 is extremely verbose
scale	should the configuration be scale adjusted
normed	should the cordillera be normed; defaults to TRUE

Value

A list with the components

• stress: the stress-1 value

• stress.m: default normalized stress

• copstress: the weighted loss value

• OC: the Optics cordillera value

• parameters: the parameters used for fitting (r)

• fit: the returned object of the fitting procedure

• cordillera: the cordillera object

cops documentation built on Oct. 20, 2024, 3:01 a.m.