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ergm (version 4.7.1)

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 (2023) .

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Install

install.packages('ergm')

Monthly Downloads

8,222

Version

4.7.1

License

GPL-3 + file LICENSE

Maintainer

Pavel N. Krivitsky

Last Published

October 7th, 2024

Functions in ergm (4.7.1)

DiscUnif2-ergmProposal

CondDegreeDist-ergmProposal

MHp for degreedist constraints

CondDegreeMix-ergmProposal

MHp for degree mix constraints

DistRLE-ergmProposal

Bernoulli-ergmReference

Bernoulli reference

Exponentiate a network's statistic

Unif-ergmReference

Continuous Uniform reference

CondB1Degree-ergmProposal

MHp for b1degree constraints

Filtering on arbitrary one-term model

DiscUnifNonObserved-ergmProposal

UnifNonObserved-ergmProposal

Offset-ergmTerm

Terms with fixed coefficients

SPDyad-ergmProposal

A proposal alternating between TNT and a triad-focused proposal

NodematchFilter-ergmTerm

Filtering on nodematch

Take a natural logarithm of a network's statistic

Evaluation on an induced subgraph

altkstar-ergmTerm

Alternating \(k\)-star

Impose a curved structure on term parameters

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

Symmetrize-ergmTerm

Evaluation on symmetrized (undirected) network

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

DiscUnif-ergmProposal

DiscUnif-ergmReference

Discrete Uniform reference

Dyads-ergmConstraint

Constrain fixed or varying dyad-independent terms

A for operator for terms

TNT-ergmProposal

Default MH algorithm

HammingConstantEdges-ergmProposal

asymmetric-ergmTerm

Asymmetric dyads

as.rlebdm.ergm_conlist

Extract dyad-level ERGM constraint information into an rlebdm object

Dyadwise shared partners for dyads in the first bipartition

absdiff-ergmTerm

Absolute difference in nodal attribute

absdiffcat-ergmTerm

Categorical absolute difference in nodal attribute

StdNormal-ergmProposal

b2degrees-ergmConstraint

Preserve the receiver degree for bipartite networks

Dyadwise shared partners for dyads in the second bipartition

b2star-ergmTerm

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

b1factor-ergmTerm

Factor attribute effect for the first mode in a bipartite network

atleast-ergmTerm

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

Unif-ergmProposal

atmost-ergmTerm

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

b1degree-ergmTerm

Degree for the first mode in a bipartite network

ANOVA for ERGM Fits

b1mindegree-ergmTerm

Minimum degree for the first mode in a bipartite network

b1star-ergmTerm

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

b1sociality-ergmTerm

b1nodematch-ergmTerm

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

b2degree-ergmTerm

Degree for the second mode in a bipartite network

b2degrange-ergmTerm

Degree range for the second mode in a bipartite network

b2starmix-ergmTerm

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

attrcov-ergmTerm

Edge covariate by attribute pairing

Modify terms' coefficient names

HammingTNT-ergmProposal

bd-ergmConstraint

Constrain maximum and minimum vertex degree

blockdiag-ergmConstraint

Block-diagonal structure constraint

StdNormal-ergmReference

Standard Normal reference

b1degrees-ergmConstraint

Preserve the actor degree for bipartite networks

b2concurrent-ergmTerm

Concurrent node count for the second mode in a bipartite network

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

b2sociality-ergmTerm

blocks-ergmConstraint

Constrain blocks of dyads defined by mixing type on a vertex attribute.

b2nodematch-ergmTerm

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

b1concurrent-ergmTerm

Concurrent node count for the first mode in a bipartite network

Ensures an Ergm Term and its Arguments Meet Appropriate Conditions

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

concurrentties-ergmTerm

Concurrent tie count

b1starmix-ergmTerm

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

degcor-ergmTerm

Degree Correlation

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

approx.hotelling.diff.test

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

b1degrange-ergmTerm

Degree range for the first mode in a bipartite network

cyclicalweights-ergmTerm

Cyclical weights

as.network.numeric

Create a Simple Random network of a Given Size

b2twostar-ergmTerm

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

b1twostar-ergmTerm

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

balance-ergmTerm

Balanced triads

b2factor-ergmTerm

Factor attribute effect for the second mode in a bipartite network

b2mindegree-ergmTerm

Minimum degree for the second mode in a bipartite network

degreedist-ergmConstraint

Preserve the degree distribution of the given network

coincidence-ergmTerm

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

concurrent-ergmTerm

Concurrent node count

control.simulate.ergm

Auxiliary for Controlling ERGM Simulation

Directed dyadwise shared partners

Auxiliary function for fine-tuning ERGM fitting.

degree-ergmTerm

degrange-ergmTerm

egocentric-ergmConstraint

Preserve values of dyads incident on vertices with given attribute

degcrossprod-ergmTerm

Degree Cross-Product

Number of edges in the network

degree1.5-ergmTerm

Degree to the 3/2 power

dyadnoise-ergmProposal

Computes and Returns the Degree Distribution Information for a Given Network

Auxiliary for Controlling ERGM Goodness-of-Fit Evaluation

Locate and call an ERGM term initialization function.

edgecov-ergmTerm

ctriple-ergmTerm

edges-ergmConstraint

Preserve the edge count of the given network

dyadnoise-ergmConstraint

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

Auxiliary for Controlling SAN

dyadcov-ergmTerm

Dyadic covariate

dyadnoiseTNT-ergmProposal

.dyads-ergmConstraint

A meta-constraint indicating handling of arbitrary dyadic constraints

Functions that have been removed from this package

Two versions of an E. Coli network dataset

Sensible error and warning messages by ergm initializers

Internal ergm Objects

ergm-deprecated

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

ergm.bridge.llr

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

Parallel Processing in the ergm Package

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

Exponential-Family Random Graph Models

degrees-ergmConstraint

Preserve the degree of each vertex of the given network

control.ergm.godfather

Control parameters for ergm.godfather().

cyclicalties-ergmTerm

density-ergmTerm

control.ergm.bridge

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

enformulate.curved-deprecated

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

Global options and term options for the ergm package

equalto-ergmTerm

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

ergm: Fit, Simulate and Diagnose Exponential-Family Models for Networks

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

Operations to map curved ergm() parameters onto canonical parameters

ergm.getnetwork

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

ergm.geodistdist

Calculate geodesic distance distribution for a network or edgelist

Find a maximizer to the psuedolikelihood function

MCMC Hints for Exponential-Family Random Graph Models

Keywords defined for Exponential-Family Random Graph Models

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

Sample Space Constraints for Exponential-Family Random Graph Models

Compute the Sample Estimating Function Values of an ERGM.

ergm_MCMC_sample

Internal Function to Sample Networks and Network Statistics

Internal Function to Perform Simulated Annealing

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

Reference Measures for Exponential-Family Random Graph Models

ergm_cutoff_message

Helper function for constructing gw* cutoff error messages

Initializes the parameters to bound degree during sampling

Terms used in Exponential Family Random Graph Models

Internal representation of an ergm network model

ergm_proposal_table

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

ergm_plot.mcmc.list

Plot MCMC list using lattice package graphics

Functions to initialize the ergm_proposal object

ergm_preprocess_response

Update the network and the response argument.

ergm_propagate_ext.encode

Extended states for submodels

ergm_mk_std_op_namewrap

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

Metropolis-Hastings Proposal Methods for ERGM MCMC

ERGM Predictors and response for logistic regression calculation of MPLE

Dynamic ERGM keyword registry

ergm_symmetrize

Return a symmetrized version of a binary network

ergm_dyadgen_select

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

ergm_edgecov_args

A common pattern for obtaining an edge covariate

A Representation of ERGM state

ergm_state_cache

A rudimentary cache for large objects

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

faux.magnolia.high

Goodreau's Faux Magnolia High School as a network object

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

faux.dixon.high

Faux dixon High School as a network object

fixallbut-ergmConstraint

Preserve the dyad status in all but the given edges

fixedas-ergmConstraint

Fix specific dyads

Goodreau's Faux Mesa High School as a network object

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

greaterthan-ergmTerm

Number of dyads with values strictly greater than a threshold

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

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

hamming-ergmConstraint

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

Directed edgewise shared partners

gwb1dsp-ergmTerm

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

gwb1degree-ergmTerm

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

faux.desert.high

Faux desert High School as a network object

Geometrically weighted non-edgewise shared partner distribution

gwodegree-ergmTerm

Geometrically weighted out-degree distribution

hamming-ergmTerm

Hamming distance

gwidegree-ergmTerm

Geometrically weighted in-degree distribution

Geometrically weighted edgewise shared partner distribution

idegrange-ergmTerm

In-degree range

idegrees-ergmConstraint

Preserve indegree for directed networks

ininterval-ergmTerm

Number of dyads whose values are in an interval

idegree-ergmTerm

isolatededges-ergmTerm

localtriangle-ergmTerm

Triangles within neighborhoods

m2star-ergmTerm

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

idegreedist-ergmConstraint

Preserve the indegree distribution

isolates-ergmTerm

mcmc.diagnostics

Conduct MCMC diagnostics on a model fit

idegree1.5-ergmTerm

In-degree to the 3/2 power

Geometrically weighted dyadwise shared partner distribution

gwdegree-ergmTerm

Geometrically weighted degree distribution

Testing for curved exponential family

intransitive-ergmTerm

Intransitive triads

Kapferer's tailor shop data

nodecovar-ergmTerm

Covariance of undirected dyad values incident on each actor

nodecov-ergmTerm

Main effect of a covariate

nodal_attributes-API

Helper functions for specifying nodal attribute levels

nearsimmelian-ergmTerm

Near simmelian triads

nodal_attributes

Specifying nodal attributes and their levels

meandeg-ergmTerm

Mean vertex degree

nodeifactor-ergmTerm

Factor attribute effect for in-edges

Synthetic network with 20 nodes and 28 edges

mutual-ergmTerm

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

Mixing matrix cells and margins

nodefactor-ergmTerm

Factor attribute effect

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

nodeocov-ergmTerm

Main effect of a covariate for out-edges

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

nodeicovar-ergmTerm

Covariance of in-dyad values incident on each actor

gwb2dsp-ergmTerm

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

nodeicov-ergmTerm

Main effect of a covariate for in-edges

gwb2degree-ergmTerm

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

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

is.dyad.independent

Testing for dyad-independence

nodeocovar-ergmTerm

Covariance of out-dyad values incident on each actor

opentriad-ergmTerm

odegree-ergmTerm

randomtoggle-ergmProposal

Propose a randomly selected dyad to toggle

odegree1.5-ergmTerm

Out-degree to the 3/2 power

nodeofactor-ergmTerm

Factor attribute effect for out-edges

nodemix-ergmTerm

Nodal attribute mixing

observed-ergmConstraint

Preserve the observed dyads of the given network

nodematch-ergmTerm

Uniform homophily and differential homophily

A lack-of-fit test for ERGMs

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

odegreedist-ergmConstraint

Preserve the outdegree distribution

sender-ergmTerm

Identify the position of a point relative to the convex hull of a set of points

smallerthan-ergmTerm

Number of dyads with values strictly smaller than a threshold

Names of the parameters associated with an object.

smalldiff-ergmTerm

Number of ties between actors with similar attribute values

predict.formula

ERGM-based tie probabilities

Calculate the null model likelihood

simulate.formula

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

Directed non-edgewise shared partners

A logLik() method for ergm fits.

odegrange-ergmTerm

Out-degree range

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

nvattr.copy.network

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

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

Stratify Proposed Toggles by Mixing Type on a Vertex Attribute

odegrees-ergmConstraint

Preserve outdegree for directed networks

receiver-ergmTerm

Receiver effect

RLE-Compressed Boolean Dyad Matrix

threetrail-ergmTerm

to_ergm_Cdouble.network

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

sparse-ergmHint

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

transitive-ergmTerm

Transitive triads

transitiveweights-ergmTerm

Transitive weights

search.ergmTerms

Search ERGM terms, constraints, references, hints, and proposals

Statnet Control

summary.formula

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

triadic-ergmHint

Network with strong clustering (triad-closure) effects

Sum of dyad values (optionally taken to a power)

Generate networks with a given set of network statistics

summary_formula

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

simmelian-ergmTerm

Simmelian triads

triangle-ergmTerm

Draw from the distribution of an Exponential Family Random Graph Model

tripercent-ergmTerm

Triangle percentage

simmelianties-ergmTerm

Ties in simmelian triads

ttriple-ergmTerm

Transitive triples

triadcensus-ergmTerm

sociality-ergmTerm

Undirected degree

summary.ergm_model

Evaluate network summary statistics from an initialized ergm model

Summarizing ERGM Model Fits

twopath-ergmTerm

transitiveties-ergmTerm

Transitive ties

Update the edges in a network based on a matrix

Weighted Median

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.

BDStratTNT-ergmProposal

TNT proposal with degree bounds, stratification, and a blocks constraint

CondInDegree-ergmProposal

MHp for idegree constraints

CondInDegreeDist-ergmProposal

MHp for idegreedist constraints

CondDegree-ergmProposal

MHp for degree constraints

CondB2Degree-ergmProposal

MHp for b2degree constraints

CondOutDegree-ergmProposal

MHp for odegree constraints

Wrap binary terms for use in valued models

CondOutDegreeDist-ergmProposal

MHp for odegreedist constraints

ConstantEdges-ergmProposal

MHp for edges constraints