# Animal Network Toolkit Software

## Documentation for package ‘ANTs’ version 0.0.16

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

ant | ANT diagnostic for permuted statistics
assoc.gfi | Generalized affiliation index
assoc.indices | Association indices
convert.socprog | Converts Socprog data frame
df.create | Creates an empty data frame or a list of empty data frames
df.to.gbi | Data frame to GBI.
df.to.mat | Data frame to a matrix
gbi.to.df | Group by individual matrix to linear data frame of association
import.df | Imports data frames
import.mat | Imports matrices
mat.to.edgl | Matrix to edge list
met.affinity | Affinity
met.assortativity | Assortativity
met.betweenness | Betweenness centrality
met.ci | Centralisation index
met.degree | Degree
met.density | Density
met.diameter | Diameter
met.disparity | Disparity
met.eigen | Eigenvector Centrality
met.ge | Global efficiency
met.geodesic | Geodesic distances
met.indegree | Indegree
met.instrength | Instrength
met.lp | Laplacian centrality
met.outdegree | Outdegree
met.outstrength | Outstrength
met.reach | Reach centrality
met.ri | R-Index
met.strength | Strength
perm.double.focal | Data stream permutation for focal sampling data .
perm.double.focal.single | Double permutation approach for focal sampling
perm.double.grp | Data stream permutation for association data
perm.double.grp.single | Double permutation approach for gambit of the group
perm.ds.focal | Data stream permutation for focal sampling data .
perm.ds.grp | Data stream permutation for association data
perm.net.degree | Link permutation keeping the structure
perm.net.lk | Matrix links permutations
perm.net.lk.w | Links weigths permutations
perm.net.nl | Node label permutations with or without random factor(s)
perm.net.nl.str | Nodes labels permutation keeping network structure
sampling.effort | Sampling effort
sampling.robustness | Metric robustness
sampling.uncertainty | Metric uncertainty
sim.df | Simulated data frame
sim.focal.directed | Focal sampling directed data
sim.focal.undirected | Focal sampling undirected data
sim.gbi | Group by individual (GBI) matrix
sim.gbi.att | Dyadic attributes for sim.gbi data
sim.grp | Simulated data collected through gambit of the group sampling
sim.m | Simulated Matrix of interactions
sim.socprog | Simulated Socprog data format
stat.cor | Correlation test on permuted data.
stat.deletions | Network target & random deletion simulations
stat.deletionsPlot | Plot for network deletion simulations
stat.glm | Permuted Generalized Linear Model
stat.glmm | Extracts statistical measures of interest in Generalized Linear Mixed Models
stat.glmm.no.first.model | Extracts statistical measures of interest in Generalized Linear Mixed Models
stat.glmm.parallel | Extracts statistical measures of interest in Generalized Linear Mixed Models in parallel
stat.lm | Extracts statistical measures of interest in Linear Model
stat.t | T-test on data frame
stat.tauKr | Matrix TauKr correlations
vis.post.distribution | Histogram of posterior distribution
vis.post.distribution2 | Histogram of posterior distribution
which.metric | Which metric to choose
which.protocol | Which metric to choose