hub.wgs: Identification of hub genes in a Gene Co-expression Network...

In dhga: Differential Hub Gene Analysis

Description

The function returns the list of hub genes in a Gene Co-expression Network based on Weighted Gene Score without considering statistical significance values.

Usage

hub.wgs(x, beta, n)

Arguments

x	x is a data frame of gene expression values where rows represent genes and columns represent samples/time.
beta	beta is a soft threshold parameter determined from the scale free property of biological networks (Gene Co-expression Network).
n	n is a scalar representing number of genes to be declared as hub in the Gene Co-expression Network based on Weighted Gene Score.

Value

The function returns a list of hub genes in the Gene Co-expression Network

Author(s)

Samarendra Das and Baidya Nath Mandal

Examples

data(rice_salt)

hub.wgs(rice_salt,beta=6, n=20)

Example output

Loading required package: VennDiagram
Loading required package: grid
Loading required package: futile.logger
 [1] "Os.54653.1.S1_at"     "Os.534.2.S1_x_at"     "OsAffx.12433.1.S1_at"
 [4] "OsAffx.12383.1.S1_at" "Os.22029.1.S1_a_at"   "OsAffx.7332.1.S1_at" 
 [7] "Os.11555.1.S1_at"     "OsAffx.12783.1.S1_at" "Os.54579.1.S1_s_at"  
[10] "Os.25613.1.A1_at"     "Os.54146.1.S1_at"     "Os.5197.2.S1_x_at"   
[13] "Os.11272.1.S1_at"     "Os.55907.1.S1_at"     "Os.17102.1.S1_at"    
[16] "Os.40000.1.S1_at"     "OsAffx.26317.1.S2_at" "Os.54672.1.S1_at"    
[19] "OsAffx.24515.1.S1_at" "Os.56048.1.S1_s_at"  
attr(,"class")
[1] "Hub Genes"

dhga documentation built on May 2, 2019, 2:13 p.m.