calc_swness_zscore: Calculation Small-world-ness z-scores

In lsaravia/EcoNetwork: Ecological network analyses including multiplex networks

Calculation Small-world-ness z-scores

Description

The function calculates small-world-ness z-scores and 99\ using as null model the list of networks in the nullDist parameter.

Usage

calc_swness_zscore(g, nullDist, sLevel = 0.01, ncores = 0, weights = NA)

Arguments

g	igraph object
nullDist	list of igraph object with the null model simulations
sLevel	significance level to calculate CI (two tails)
ncores	number of cores to use paralell computation, if 0 sequential processing is used.

Value

a list with two data frames: one with indices z-scores and CI

Clustering	Clustering coefficient, measures the average fraction of pairs of neighbors of a node that are also neighbors of each other
PathLength	Mean of the shortest paths between all pair of vertices
Modularity	modularity measures how separated are different groups from each other, the algorithm cluster_spinglass was used to obtain the groups
zCC, zCP, zMO	Z-scores of Clustering,PathLength and Modularity with respect to a random Erdos-Renyi null model
CClow, CChigh, CPlow, CPhigh, MOlow, MOhigh	sLevel confidence intervals
SWness, SWnessCI	Small-world-ness and it CI value
isSW, isSWness	Logical variable signalling if the network is Small-world by the method of Marina 2018 or the method of Humprhies & Gurney 2008

Another data.frame with the values calculated for the nullDist.

References

Marina, T. I., Saravia, L. A., Cordone, G., Salinas, V., Doyle, S. R., & Momo, F. R. (2018). Architecture of marine food webs: To be or not be a ‘small-world.’ PLoS ONE, 13(5), 1–13. https://doi.org/10.1371/journal.pone.0198217

Examples

## Not run: 
nullg <- generateERbasal(netData[[1]],10)
calc_swness_zscore(netData[[1]],nullg)

## End(Not run)

lsaravia/EcoNetwork documentation built on March 20, 2024, 3:27 p.m.