priorclust {GeneNT}R Documentation

Regular "prior" clustering

Description

This function does regular clustering based on core R function hclust().

Usage

priorclust(p)

Arguments

p p is the scaling factor that need to be adjusted using biological prior knowledge.

Details

This function is written in comparison to the "posterior" clustering implemented as spclust().

Value

This function returns a distance matrix that can be used by any distance based clustering software.

Author(s)

Dongxiao Zhu (http://www-personal.umich.edu/~zhud)

References

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). Submitted.

See Also

spclust

Examples

# 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.
#priorclust(3)

[Package GeneNT version 1.2 Index]