make_DD: Makes a Duplication and Divergence Network
In langendorfr/netcom: NETwork COMparison Inference

make_DD

R Documentation

Makes a Duplication and Divergence Network

Description

Makes a network according to the Duplication and Divergence mechanism.

Usage

make_DD(size, net_kind, divergence, directed = TRUE)

Arguments

`size`	Number of nodes in the network.
`net_kind`	If the network is an adjacency matrix ("matrix") or an edge list ("list").
`divergence`	Probability that the new node loses edges associated with the node it duplicates. Needs to be between zero and one.
`directed`	Whether the target network is directed. Defaults to TRUE.

Details

Different from Duplication & Mutation models in that edges can only be lost.

Value

An adjacency matrix.

References

Ispolatov, I., Krapivsky, P. L., & Yuryev, A. (2005). Duplication-divergence model of protein interaction network. Physical review E, 71(6), 061911.

Examples

# Import netcom
library(netcom)

# Network size (number of nodes)
size <- 10

# Divergence parameter
divergence <- 0.237

# Make network according to the Duplication & Divergence mechanism
make_DD(size = size, net_kind = "matrix", divergence = divergence)

langendorfr/netcom documentation built on July 23, 2022, 5:19 p.m.