| protein {evclust} | R Documentation |
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)