| tdclust {GeneNT} | R Documentation |
This function does traditional clustering based on core R function hclust().
tdclust(p)
p |
p is the exponential tuning factor. The default value is 1, and it can be set to other positive integers when necessary. |
This function is written in comparison to the network constrained clustering implemented as ncclust().
This function returns a distance matrix that can be used by any distance based clustering software.
Dongxiao Zhu (http://www-personal.umich.edu/~zhud)
Zhu, D., Hero, A.O., Qin, Z.S. and Swaroop, A. High throughput screening of co-expressed gene pairs with controlled False Discovery Rate (FDR) and Minimum Acceptable Strength (MAS). J. Comput. Biol, in press.
# load GeneNT and GeneTS library
library(GeneTS)
library(GeneNT)
#EITHER use the example dataset
data(dat)
#OR use the following if you want to import external data
#dat <- read.table("gal.txt", h = T, row.names = 1)
#Note, data matrix name has to be "dat"
#Regular hierarchical clustering, for example, p = 3.
#tdclust(3)