cordillera (version 0.8-0)

cordillera-package: cordillera: The OPTICS Cordillera

Description

A package for calculating the OPTICS Cordillera. The package contains various functions, methods and classes for calculating and plotting the OPTICS Cordillera and an interface to ELKI's OPTICS.

Details

The stops package provides these main functions:

• cordillera() ... OPTICS Cordillera using dbscan OPTICS implementation

• e_cordillera()... ... OPTICS Cordillera using ELKI's OPTICS implementation

• e_optics() ... An interface to ELKI's implementation of OPTICS

Methods: For most of the objects returned by the high-level functions S3 classes and methods for standard generics were implemented, including print, summary, plot.

References:

• Rusch, T., Hornik, K., & Mair, P. (2017) Assessing and quantifying clusteredness: The OPTICS Cordillera, Journal of Computational and Graphical Statistics. http://dx.doi.org/10.1080/10618600.2017.1349664

Authors: Thomas Rusch

Maintainer: Thomas Rusch

Examples

data(CAClimateIndicatorsCountyMedian)

res<-princomp(CAClimateIndicatorsCountyMedian[,3:52])
res
summary(res)

library(scatterplot3d)
scatterplot3d(res$scores[,1:3])

irisrep3d<-res$scores[,1:3]
irisrep2d<-res$scores[,1:2]


#OPTICS in dbscan version
library(dbscan)
ores<-optics(irisrep2d,minPts=15,eps=100)
plot(ores)
#OPTICS cordillera for the 2D representation
cres2d<-cordillera(irisrep2d,minpts=15)
cres2d
summary(cres2d)
plot(cres2d)

#OPTICS cordillera for the 3D representation
cres3d<-cordillera(irisrep3d,minpts=15)
cres3d
summary(cres3d)
plot(cres3d)

# \donttest{
#OPTICS in ELKI version
ores<-e_optics(irisrep2d,minpts=10,epsilon=100)
ores
summary(ores)
plot(ores)
# }