construct_nlocal: Non-local network construction

In ProNet: Biological Network Construction, Visualization and Analyses

Description

Construction a network from integrated PPI database.

Usage

construct_nlocal(input, db = c("Biogrid", "HPRD"), species = c("human",
  "ath"), ID.type = c("Gene symbol", "Entrez Gene"),
  hierarchy = 1)

Arguments

input	A data frame containing the experimental data.
db	Integrated PPI database, either Biogrid or HPRD.
species	This parameter indicates the biological species to which analyzable PPI data is related; currently human for "Homo sapiens" and ath for "Arabidopsis thaliana" are available.
ID.type	The ID type of the biological genes or proteins, possible values are Entrez gene and Gene symbol when db is Biogrid, or Gene symbol when db is HPRD.
hierarchy	This parameter indicates how many hierarchy are included in the network, currently it can be 0, 1 or 2. Default value is 1.

Value

A network in igraph format.

See Also

construction, construct_local.

Examples

nlocal<-data.frame(c("DVL1","DVL2","DVL3"))
net<-construct_nlocal(input=nlocal,db="HPRD",species="human",ID.type="Gene symbol",hierarchy=1)

ProNet documentation built on May 30, 2017, 2:02 a.m.