getGOSim: getGOSim

In ShadowFiendSF/GSminer: Select gold standard including positive and negative genes pairs based on the Gene Ontology

Description

Compute the GO term similarity

Usage

getGOSim(g, selectedGO, method = c("Resnik", "Lin", "Schlicker", "Jiang",
  "Pesquita"), multicores = NULL)

Arguments

g	igraph object
selectedGO	list which name is selected GO term
method	method for computing the similarity
multicores	an integer to specify how many cores will be registered as the multicore parallel backend to the 'foreach' package.

Value

similarity matrix

Author(s)

Li Zhaohong && Wu Zefeng

Examples

library(igraph)
#just for an example:
#HPPA <-dRDataLoader(RData='ig.HPPA')
#g <- ig.HPPA
#getGOSim(g, selectedGO, method= "Resnik", multicores = 3)

ShadowFiendSF/GSminer documentation built on May 29, 2019, 3:03 p.m.