check_SFT: Check scale-free topology fit for a given network

In almeidasilvaf/BioNERO: Biological Network Reconstruction Omnibus

Check scale-free topology fit for a given network

Description

Check scale-free topology fit for a given network

Usage

check_SFT(edgelist, net_type = "gcn")

Arguments

edgelist	Edge list as a data frame containing node 1, node 2 and edge weight.
net_type	Type of biological network. One of "gcn", "grn", or "ppi". Default: gcn.

Value

A list with SFT fit statistics and a message indicating if the network is scale-free.

Examples

set.seed(1)
exp <- t(matrix(rnorm(10000), ncol=1000, nrow=200))
rownames(exp) <- paste0("Gene", 1:nrow(exp))
colnames(exp) <- paste0("Sample", 1:ncol(exp))
cormat <- cor(t(exp))
edges <- cormat_to_edgelist(cormat)
edges <- edges[abs(edges$Weight) > 0.10, ]
check_SFT(edges)

almeidasilvaf/BioNERO documentation built on March 25, 2024, 9:14 p.m.