evclust (version 2.0.3)

protein: Protein dataset

Description

This real data set consists of a dissimilarity matrix derived from the structural comparison of 213 protein sequences. Each of these proteins is known to belong to one of four classes of globins: hemoglobin-alpha (HA), hemoglobin-beta (HB), myoglobin (M) and heterogeneous globins (G).

Usage

data(protein)

Format

A list with three elements:

D

The 213x213 dissimilarity matrix.

class

A 213-vector containing the class encoded a a factor with four levels: "G", "HA", "HB", "M".

y

A 213-vector containing the class encoded by an integer between 1 and 4.

References

T. Hofmann,and J. Buhmann. Pairwise data clustering by deterministic annealing. IEEE Transactions on Pattern Analysis and Machine Intelligence, 19(1):1--14, 1997.

T. Graepel, R. Herbrich, P. Bollmann-Sdorra, and K. Obermayer. Classification on pairwise proximity data. in Advances in Neural Information Processing Systems 11, M. Kearns, S. Solla, and D. Kohn, eds., MIT Press, Cambridge, MA, 438--444, 1999.

T. Denoeux and M.-H. Masson. EVCLUS: Evidential Clustering of Proximity Data. IEEE Transactions on Systems, Man and Cybernetics B, Vol. 34, Issue 1, 95--109, 2004.

Examples

data(protein)
z<- cmdscale(protein$D,k=2)  # Multidimensional scaling
plot(z[,1],z[,2],xlab=expression(z[1]),ylab=expression(z[2]),pch=protein$y,col=protein$y)