# Fit and Simulate Generalised Hypergeometric Ensembles of Graphs

## Documentation for package ‘ghypernet’ version 1.1.0

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

## Help Pages

adj2el | Maps adjacency matrix to edgelist
adj_karate | Zachary's Karate Club graph
as.ghype | Map list to ghype object
as.ghype.list | Map list to ghype object
as.ghype.nrm | Map list to ghype object
bccm | Fitting bccm models
BootstrapProperty | BootstrapProperty computes igraph analytics function on ensemble
checkGraphtype | Check graph input type (for whether it's a graph or a edgelist).
coef.nrm | Extraction method for coefficients of models of class "nrm".
ComputeXi | Auxiliary function. Computes combinatorial matrix.
compute_xi | Auxiliary function. Computes combinatorial matrix.
conf.test | Test regular (gnp) vs configuration model
contacts.adj | Highschool contact network adjacency matrix
cospons_mat | Swiss MPs network adjacency matrix
coxsnellR2 | Computes Cox and Snell pseudo R-squared for nrm models.
CreateIgGraphs | Convert a list of adjacency matrices to a list of igraph graphs.
createPredictors | Create a nrmpredictor object from passed argument
create_predictors | Create a nrmpredictor object from passed argument
create_predictors.list | Create a nrmpredictor object from list
dt | Swiss MPs attribute data frame.
dtcommittee | Swiss MPs committee affiliation data frame.
el2adj | Maps edgelist to adjacency matrix
extract.nrm.cluster | Extract details from statistical models for table construction. The function has methods for a range of statistical models.
FitOmega | Fit propensity matrix for full model
get_zero_dummy | Create a dummy variable to encode zero values of another variable.
ghype | Fitting gHypEG models
ghype.default | Fitting gHypEG models
ghype.igraph | Fitting gHypEG models
ghype.matrix | Fitting gHypEG models
gof.test | Perform a goodness-of-fit test
highschool.multiplex | Highschool contact network multiplex representation
highschool.predictors | Highschool contact network predictors
homophily_stat | Calculate homophily in multi-edge graphs.
isNetwork | Test null model vs full ghype.
JnBlock | Fisher Information matrix for estimators in block models.
linkSignificance | Estimate statistical deviations from ghype model
link_significance | Estimate statistical deviations from ghype model
logl | General method to compute log-likelihood for ghype models.
logl.ghype | General method to compute log-likelihood for ghype models.
logl.matrix | General method to compute log-likelihood for ghype models.
logLik.ghype | Extract Log-Likelihood
loglratio | Compute log-likelihood ratio for ghype models.
lr.test | Perform likelihood ratio test between two ghype models.
mat2vec.ix | Auxiliary function, gives mask for matrix for directed, undirected etc.
mcfaddenR2 | Computes Mc Fadden pseudo R-squared.
nr.ci | Confidence intervals for nrm models.
nr.significance | Computes the significance of more complex model against a simpler model by means of a likelihood ratio test.
nrm | Fitting gHypEG regression models for multi-edge networks.
nrm.default | Fitting gHypEG regression models for multi-edge networks.
nrmChoose | Selects the best set of predictors among the given sets by means of AIC.
nrmSelection | Perform AIC forward selection for nrm.
nrm_choose | Selects the best set of predictors among the given sets by means of AIC.
nrm_selection | Perform AIC forward selection for nrm.
nrm_selection.default | Perform AIC forward selection for nrm.
nrm_selection.nrmpredictor | Perform AIC forward selection for nrm.
onlinesim_mat | Swiss MPs committee similarity matrix.
predict.nrm | Method to predict the expected values of a nrm model
print.bccm | Fitting bccm models
print.ghype | Fitting gHypEG models
print.nrm | Fitting gHypEG regression models for multi-edge networks.
print.nrm_selection | Perform AIC forward selection for nrm.
print.summary.nrm | Summary method for elements of class "nrm".
print.summary.nrm_selection | Summary method for elements of class "nrm_selection".
reciprocity_stat | Calculate weighted reciprocity change statistics for multi-edge graphs.
regularm | Fit the gnm model
residuals.nrm | Method to compute residuals of nrm models
rghype | Generate random realisations from ghype model.
RMSE | Computes the Root Mean Squared Error
RMSLE | Computes the Root Mean Squared Logged Error
scm | Fit the Soft-Configuration Model
sharedPartner_stat | Calculate (un-)weighted shared partner change statistics for multi-edge graphs.
summary.nrm | Summary method for elements of class "nrm".
summary.nrm_selection | Summary method for elements of class "nrm_selection".
vec2mat | Auxiliary function, produces matrix from vector
vertexlabels | Zachary's Karate Club vertex faction assignment