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ergm (version 4.2.3)

Fit, Simulate and Diagnose Exponential-Family Models for Networks

Description

An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGMs). 'ergm' is a part of the Statnet suite of packages for network analysis. See Hunter, Handcock, Butts, Goodreau, and Morris (2008) and Krivitsky, Hunter, Morris, and Klumb (2021) .

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Install

install.packages('ergm')

Monthly Downloads

10,705

Version

4.2.3

License

GPL-3 + file LICENSE

Maintainer

Pavel N. Krivitsky

Last Published

October 2nd, 2022

Functions in ergm (4.2.3)

CondOutDegree-ergmProposal

MHp for odegree constraints

CondInDegreeDist-ergmProposal

MHp for idegreedist constraints

CondInDegree-ergmProposal

MHp for idegree constraints

A product (or an arbitrary power combination) of one or more formulas

DiscUnifNonObserved-ergmProposal

Evaluation on an induced subgraph

BDStratTNT-ergmProposal

TNT proposal with degree bounds

Wrap binary terms for use in valued models

DiscUnif-ergmReference

Discrete Uniform reference

CondOutDegreeDist-ergmProposal

MHp for odegreedist constraints

DiscUnif-ergmProposal

Bernoulli-ergmReference

Bernoulli reference

CondB1Degree-ergmProposal

MHp for b1degree constraints

Modify terms' coefficient names

HammingConstantEdges-ergmProposal

Take a natural logarithm of a network's statistic

Unif-ergmProposal

TNT-ergmProposal

Default MH algorithm

asymmetric-ergmTerm

Asymmetric dyads

as.rlebdm.ergm_conlist

Extract dyad-level ERGM constraint information into an rlebdm object

DistRLE-ergmProposal

Extract dyad-level ERGM constraint information from an ergm fit into an rlebdm object

Dyads-ergmConstraint

Constrain fixed or varying dyad-independent terms

Unif-ergmReference

Continuous Uniform reference

UnifNonObserved-ergmProposal

HammingTNT-ergmProposal

Filtering on arbitrary one-term model

Exponentiate a network's statistic

atleast-ergmTerm

Number of dyads with values greater than or equal to a threshold

approx.hotelling.diff.test

Approximate Hotelling T^2-Test for One or Two Population Means

Sum-operator-ergmTerm

A sum (or an arbitrary linear combination) of one or more formulas

Symmetrize-ergmTerm

Evaluation on symmetrized (undirected) network

attrcov-ergmTerm

Edge covariate by attribute pairing

atmost-ergmTerm

Number of dyads with values less than or equal to a threshold

as.network.numeric

Create a Simple Random network of a Given Size

b2degrange-ergmTerm

Degree range for the second mode in a bipartite network

Main effect of a covariate for the second mode in a bipartite network

absdiff-ergmTerm

Absolute difference in nodal attribute

Dyadwise shared partners for dyads in the first bipartition

b1degrees-ergmConstraint

Preserve the actor degree for bipartite networks

b2mindegree-ergmTerm

Minimum degree for the second mode in a bipartite network

b1nodematch-ergmTerm

Nodal attribute-based homophily effect for the first mode in a bipartite network

absdiffcat-ergmTerm

Categorical absolute difference in nodal attribute

Dyadwise shared partners for dyads in the second bipartition

b2factor-ergmTerm

Factor attribute effect for the second mode in a bipartite network

b1sociality-ergmTerm

b1factor-ergmTerm

Factor attribute effect for the first mode in a bipartite network

b1mindegree-ergmTerm

Minimum degree for the first mode in a bipartite network

b2nodematch-ergmTerm

Nodal attribute-based homophily effect for the second mode in a bipartite network

b2degrees-ergmConstraint

Preserve the receiver degree for bipartite networks

b2degree-ergmTerm

Degree for the second mode in a bipartite network

altkstar-ergmTerm

Alternating \(k\)-star

ANOVA for ERGM Fits

CondDegreeDist-ergmProposal

MHp for degreedist constraints

b1degrange-ergmTerm

Degree range for the first mode in a bipartite network

b1degree-ergmTerm

Degree for the first mode in a bipartite network

Locate and call an ERGM term initialization function.

CondDegreeMix-ergmProposal

MHp for degree mix constraints

cyclicalties-ergmTerm

Auxiliary for Controlling ERGM Fitting

b1star-ergmTerm

\(k\)-stars for the first mode in a bipartite network

control.ergm.bridge

Auxiliaries for Controlling ergm.bridge.llr() and logLik.ergm()

b2twostar-ergmTerm

Two-star census for central nodes centered on the second mode of a bipartite network

b2starmix-ergmTerm

Mixing matrix for \(k\)-stars centered on the second mode of a bipartite network

Ensures an Ergm Term and its Arguments Meet Appropriate Conditions

Directed dyadwise shared partners

degcor-ergmTerm

Degree Correlation

Impose a curved structure on term parameters

ConstantEdges-ergmProposal

MHp for edges constraints

b1starmix-ergmTerm

Mixing matrix for \(k\)-stars centered on the first mode of a bipartite network

NodematchFilter-ergmTerm

Filtering on nodematch

concurrentties-ergmTerm

Concurrent tie count

concurrent-ergmTerm

Concurrent node count

dyadnoise-ergmConstraint

A soft constraint to adjust the sampled distribution for dyad-level noise with known perturbation probabilities

Computes and Returns the Degree Distribution Information for a Given Network

ctriple-ergmTerm

Directed edgewise shared partners

dgwdsp-ergmTerm

Geometrically weighted dyadwise shared partner distribution

degreedist-ergmConstraint

Preserve the degree distribution of the given network

dyadcov-ergmTerm

Dyadic covariate

cyclicalweights-ergmTerm

Cyclical weights

edges-ergmConstraint

Preserve the edge count of the given network

blockdiag-ergmConstraint

Block-diagonal structure constraint

Number of edges in the network

b2sociality-ergmTerm

blocks-ergmConstraint

Constrain "blocks" of dyads

degree-ergmTerm

degree1.5-ergmTerm

Degree to the 3/2 power

Compute the Sample Estimating Function Values of an ERGM.

b2star-ergmTerm

\(k\)-stars for the second mode in a bipartite network

Keywords defined for Exponential-Family Random Graph Models

MCMC Hints for Exponential-Family Random Graph Models

Operations to map curved ergm() parameters onto canonical parameters

degcrossprod-ergmTerm

Degree Cross-Product

control.ergm.godfather

Control parameters for ergm.godfather().

Auxiliary for Controlling ERGM Goodness-of-Fit Evaluation

edgecov-ergmTerm

Sensible error and warning messages by ergm initializers

ergm-deprecated

Functions that will no longer be supported in future releases of the package

Parallel Processing in the ergm Package

Fit, Simulate and Diagnose Exponential-Family Models for Networks

Offset-ergmTerm

Terms with fixed coefficients

Two versions of an E. Coli network dataset

Reference Measures for Exponential-Family Random Graph Models

Directed non-edgewise shared partners

degrange-ergmTerm

Auxiliary for Controlling SAN

.dyads-ergmConstraint

A meta-constraint indicating handling of arbitrary dyadic constraints

control.simulate.ergm

Auxiliary for Controlling ERGM Simulation

Internal Function to Perform Simulated Annealing

Dyadwise shared partners

Global options and term options for the ergm package

ergm_MCMC_sample

Internal Function to Sample Networks and Network Statistics

ergm_propagate_ext.encode

Extended states for submodels

Internal ergm Objects

Functions to initialize the ergm_proposal object

Calculate the exact loglikelihood for an ERGM

StdNormal-ergmReference

Standard Normal reference

ergm.getnetwork

Acquire and verify the network from the LHS of an ergm formula and verify that it is a valid network.

dgwesp-ergmTerm

Geometrically weighted edgewise shared partner distribution

StdNormal-ergmProposal

b1concurrent-ergmTerm

Concurrent node count for the first mode in a bipartite network

Main effect of a covariate for the first mode in a bipartite network

A function to apply a given series of changes to a network.

b1twostar-ergmTerm

Two-star census for central nodes centered on the first mode of a bipartite network

dgwnsp-ergmTerm

Geometrically weighted non-edgewise shared partner distribution

ergm_dyadgen_select

A helper function to select and construct a dyad generator for C.

Initializes the parameters to bound degree during sampling

Terms used in Exponential Family Random Graph Models

ergm_state_cache

A rudimentary cache for large objects

faux.magnolia.high

Goodreau's Faux Magnolia High School as a network object

dyadnoise-ergmProposal

Find a maximizer to the psuedolikelihood function

ergm.geodistdist

Calculate geodesic distance distribution for a network or edgelist

An API for specifying aspects of an ergm model in the LHS/basis network.

egocentric-ergmConstraint

Preserve values of dyads incident on vertices with given attribute

Sample Space Constraints for Exponential-Family Random Graph Models

dyadnoiseTNT-ergmProposal

Edgewise shared partners

greaterthan-ergmTerm

Number of dyads with values strictly greater than a threshold

gwb1degree-ergmTerm

Geometrically weighted degree distribution for the first mode in a bipartite network

b2concurrent-ergmTerm

Concurrent node count for the second mode in a bipartite network

balance-ergmTerm

Balanced triads

ergm_Cstate_clear

Deallocate the C data structures corresponding to an ergm_state left over from a .Call() run.

Curved settings for geometric weights for the gw* terms

ergm_proposal_table

Table mapping reference,constraints, etc. to ERGM Metropolis-Hastings proposals

Goodreau's Faux Mesa High School as a network object

Convert a curved ERGM into a corresponding "fixed" ERGM.

fixallbut-ergmConstraint

Preserve the dyad status in all but the given edges

idegree1.5-ergmTerm

In-degree to the 3/2 power

idegree-ergmTerm

A Representation of ERGM state

gwidegree-ergmTerm

Geometrically weighted in-degree distribution

Geometrically weighted nonedgewise shared partner distribution

Kapferer's tailor shop data

Multivariate version of coda's coda::geweke.diag().

Target statistics and model fit to a hypothetical 50,000-node network population with 50,000 nodes based on egocent

bd-ergmConstraint

Constrain maximum and minimum vertex degree

enformulate.curved-deprecated

Convert a curved ERGM into a form suitable as initial values for the same ergm. Deprecated in 4.0.0.

Calculate all possible vectors of statistics on a network for an ERGM

Exponential-Family Random Graph Models

meandeg-ergmTerm

Mean vertex degree

Conduct Goodness-of-Fit Diagnostics on a Exponential Family Random Graph Model

coincidence-ergmTerm

Coincident node count for the second mode in a bipartite (aka two-mode) network

Metropolis-Hastings Proposal Methods for ERGM MCMC

ergm_plot.mcmc.list

Plot MCMC list using lattice package graphics

fixedas-ergmConstraint

Preserve and preclude edges

ergm_preprocess_response

Update the network and the response argument.

ergm_edgecov_args

A common pattern for obtaining an edge covariate

ERGM Predictors and response for logistic regression calculation of MPLE

degrees-ergmConstraint

Preserve the degree of each vertex of the given network

Dynamic ERGM keyword registry

mutual-ergmTerm

equalto-ergmTerm

Number of dyads with values equal to a specific value (within tolerance)

Synthetic network with 20 nodes and 28 edges

density-ergmTerm

idegreedist-ergmConstraint

Preserve the indegree distribution

Functions that have been removed from this package

idegrees-ergmConstraint

Preserve indegree for directed networks

Florentine Family Marriage and Business Ties Data as a "network" object

gwb2dsp-ergmTerm

Geometrically weighted dyadwise shared partner distribution for dyads in the second bipartition

gwdegree-ergmTerm

Geometrically weighted degree distribution

gwodegree-ergmTerm

Geometrically weighted out-degree distribution

ergm_symmetrize

Return a symmetrized version of a binary network

predict.formula

ERGM-based tie probabilities

Names of the parameters associated with an object.

nearsimmelian-ergmTerm

Near simmelian triads

Mixing matrix cells and margins

nodemix-ergmTerm

Nodal attribute mixing

A convenience container for a list of network objects, output by simulate.ergm among others.

nodematch-ergmTerm

Uniform homophily and differential homophily

Goodreau's four node network as a "network" object

Retrieve and check assumptions about vertex attributes (nodal covariates) in a network

search.ergmTerms

Search the ERGM terms

Geometrically weighted edgewise shared partner distribution

Geometrically weighted dyadwise shared partner distribution

ininterval-ergmTerm

Number of dyads whose values are in an interval

hamming-ergmConstraint

Preserve the hamming distance to the given network (BROKEN: Do NOT Use)

Use Simulated Annealing to attempt to match a network to a vector of mean statistics

Obtain the set of informative dyads based on the network structure.

ergm_mk_std_op_namewrap

Combine an operator term's and a subterm's name in a standard fashion.

Internal representation of an ergm network model

faux.dixon.high

Faux dixon High School as a network object

ergm.bridge.llr

Bridge sampling to evaluate ERGM log-likelihoods and log-likelihood ratios

faux.desert.high

Faux desert High School as a network object

smalldiff-ergmTerm

Number of ties between actors with similar attribute values

sender-ergmTerm

Testing for curved exponential family

Stratified dyads

smallerthan-ergmTerm

Number of dyads with values strictly smaller than a threshold

Sum of dyad values (optionally taken to a power)

search.ergmConstraints

Search the ERGM Constraint

Draw from the distribution of an Exponential Family Random Graph Model

isolatededges-ergmTerm

intransitive-ergmTerm

Intransitive triads

A logLik method for ergm fits.

Calculate the null model likelihood

nodal_attributes-API

Helper functions for specifying nodal attribute levels

Update the edges in a network based on a matrix

simulate.formula

A simulate Method for formula objects that dispatches based on the Left-Hand Side

isolates-ergmTerm

is.dyad.independent

Testing for dyad-independence

triadcensus-ergmTerm

transitive-ergmTerm

Transitive triads

transitiveties-ergmTerm

Transitive ties

transitiveweights-ergmTerm

Transitive weights

nodefactor-ergmTerm

Factor attribute effect

nodecovar-ergmTerm

Covariance of undirected dyad values incident on each actor

nodecov-ergmTerm

Main effect of a covariate

localtriangle-ergmTerm

Triangles within neighborhoods

gwb1dsp-ergmTerm

Geometrically weighted dyadwise shared partner distribution for dyads in the first bipartition

nodeicov-ergmTerm

Main effect of a covariate for in-edges

wrap.ergm_model

Wrap a submodel's curved, empty network statistics, and extended state (read-only) specification (if present) for output from an InitErgmTerm or InitWtErgmTerm.

nodeocov-ergmTerm

Main effect of a covariate for out-edges

nodeocovar-ergmTerm

Covariance of out-dyad values incident on each actor

randomtoggle-ergmProposal

Propose a randomly selected dyad to toggle

gwb2degree-ergmTerm

Geometrically weighted degree distribution for the second mode in a bipartite network

nodal_attributes

Specifying nodal attributes and their levels

opentriad-ergmTerm

Length of the parameter vector associated with an object or with its terms.

nodeofactor-ergmTerm

Factor attribute effect for out-edges

Nonedgewise shared partners

odegreedist-ergmConstraint

Preserve the outdegree distribution

hamming-ergmTerm

Hamming distance

nvattr.copy.network

Copy network- and vertex-level attributes between two network objects

idegrange-ergmTerm

In-degree range

Determine whether a vector is in the closure of the convex hull of some sample of vectors

Function to check whether an ERGM fit or some aspect of it is valued

receiver-ergmTerm

Receiver effect

RLE-Compressed Boolean Dyad Matrix

Statnet Control

A lack-of-fit test for ERGMs

odegrees-ergmConstraint

Preserve outdegree for directed networks

Longitudinal networks of positive affection within a monastery as a "network" object

m2star-ergmTerm

Mixed 2-stars, a.k.a 2-paths

search.ergmProposals

Search the ERGM Proposals

search.ergmReferences

Search the ERGM References

sparse-ergmHint

Multivariate version of coda's spectrum0.ar().

Cumulative network of positive affection within a monastery as a "network" object

Weighted Median

InitErgmTerm.threepath

ttriple-ergmTerm

Transitive triples

sociality-ergmTerm

Undirected degree

to_ergm_Cdouble.network

Methods to serialize objects into numeric vectors for passing to the C side.

mcmc.diagnostics

Conduct MCMC diagnostics on a model fit

Summarizing ERGM Model Fits

twopath-ergmTerm

nodeicovar-ergmTerm

Covariance of in-dyad values incident on each actor

nodeifactor-ergmTerm

Factor attribute effect for in-edges

observed-ergmConstraint

Preserve the observed dyads of the given network

odegrange-ergmTerm

Out-degree range

summary.ergm_model

Evaluate network summary statistics from an initialized ergm model

odegree-ergmTerm

tripercent-ergmTerm

Triangle percentage

odegree1.5-ergmTerm

Out-degree to the 3/2 power

triangle-ergmTerm

summary.formula

Calculation of network or graph statistics or other attributes specified on a formula

simmelianties-ergmTerm

Ties in simmelian triads

simmelian-ergmTerm

Simmelian triads

summary_formula

Dispatching a summary function based on the class of the LHS of a formula.

CondDegree-ergmProposal

MHp for degree constraints

CondB2Degree-ergmProposal

MHp for b2degree constraints

DiscUnif2-ergmProposal