biotools (version 2.0)

tocher: Tocher's Clustering

Description

tocher performs the Tocher (Rao, 1952) optimization clustering from a distance matrix.

Usage

tocher(d)

Arguments

d

an object of class "dist".

Value

• A list of
• clusters
  a list of length k (the number of clusters), containing the labels of the objects in d for each cluster.
• class
  a numeric vector indicating the class (the cluster) of each object in d.
• distClust
  a matrix of distances within (diagonal) and between (off-diagonal) clusters.
• d
  the input object.

References

Cruz, C.D.; Ferreira, F.M.; Pessoni, L.A. (2011) Biometria aplicada ao estudo da diversidade genetica. Visconde do Rio Branco: Suprema. Rao, R.C. (1952) Advanced statistical methods in biometric research. New York: John Wiley & Sons. Sharma, J.R. (2006) Statistical and biometrical techniques in plant breeding. Delhi: New Age International. Silva, A.R. & Dias, C.T.S. (2013) A cophenetic correlation coefficient for Tocher's method. Pesquisa Agropecuaria Brasileira, 48:589-596.

See Also

D2.dist, coph.tocher, distClust, hclust

Examples

# example 1
data(garlicdist)
(garlic <- tocher(garlicdist))
garlic$distClust  # cluster distances

# example 2
data(USArrests)
(usa <- tocher(dist(USArrests)))
usa$distClust

# example 3
data(eurodist)
(euro <- tocher(eurodist))
euro$distClust

# End (not run)