ILSM (version 1.1.0.1)

Multi_motif: Interconnection motif forms

Description

The dictionary of interconnection motif forms without intra-guild interactions.

Usage

Multi_motif(
  ID = c("M111", "M112", "M113", "M114", "M211", "M212", "M213", "M311", "M312", "M411",
    "M121", "M122-1", "M122-2", "M122-3", "M123-1", "M123-2", "M123-3", "M123-4",
    "M123-5", "M221-1", "M221-2", "M221-3", "M222-1", "M222-2", "M222-3", "M222-4",
    "M222-5", "M222-6", "M222-7", "M222-8", "M222-9", "M321-1", "M321-2", "M321-3",
    "M321-4", "M321-5", "M131", "M132-1", "M132-2", "M132-3", "M132-4", "M132-5",
    "M231-1", "M231-2", "M231-3", "M231-4", "M231-5", "M141", "all")
)

Value

If ID is one ID, it returns a corresponding motif "igraph" object.

If ID is "all", it returns a list containing all 48 motifs of "igraph" objects.

Arguments

ID

Character. Default to "all". See details for the IDs representing different motifs.

Details

An interconnection motif is defined to comprise three sets of connected nodes: the connector nodes (belonging to b-nodes), the nodes in one subnetwork (belonging to a-nodes in the P subnetwork), and the nodes in the other subnetwork (belonging to c-nodes in the Q subnetwork). Each motif has maximumly 6 nodes, resulting in a total of 48 distinct motif forms.

Examples

ID<-c("M111","M112","M113","M114","M211","M212","M213","M311",
"M312","M411","M121","M122-1","M122-2","M122-3","M123-1",
"M123-2","M123-3","M123-4","M123-5","M221-1","M221-2",
"M221-3","M222-1","M222-2","M222-3","M222-4","M222-5",
"M222-6","M222-7","M222-8","M222-9","M321-1","M321-2",
"M321-3","M321-4","M321-5","M131","M132-1","M132-2",
"M132-3","M132-4","M132-5","M231-1","M231-2","M231-3",
"M231-4","M231-5","M141")

m<-Multi_motif("M222-4")
plot(m,main="M222-4")

mr <- par(mfrow=c(4,6),mar=c(1,1,3,1))
for(i in 1:24){
    plot(Multi_motif("all")[[i]],
    vertex.size=30, vertex.label=NA,
    vertex.color="blue",main=ID[i])
}
par(mr)