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ergm (version 4.3.2)

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

8,222

Version

4.3.2

License

GPL-3 + file LICENSE

Maintainer

Pavel N. Krivitsky

Last Published

November 24th, 2022

Functions in ergm (4.3.2)

CondB1Degree-ergmProposal

MHp for b1degree constraints

Wrap binary terms for use in valued models

Bernoulli-ergmReference

Bernoulli reference

CondInDegree-ergmProposal

MHp for idegree constraints

CondDegreeDist-ergmProposal

MHp for degreedist constraints

CondDegreeMix-ergmProposal

MHp for degree mix constraints

CondDegree-ergmProposal

MHp for degree constraints

CondInDegreeDist-ergmProposal

MHp for idegreedist constraints

Dyads-ergmConstraint

Constrain fixed or varying dyad-independent terms

DiscUnifNonObserved-ergmProposal

CondOutDegree-ergmProposal

MHp for odegree constraints

CondB2Degree-ergmProposal

MHp for b2degree constraints

BDStratTNT-ergmProposal

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

DistRLE-ergmProposal

CondOutDegreeDist-ergmProposal

MHp for odegreedist constraints

DiscUnif2-ergmProposal

DiscUnif-ergmProposal

A for operator for terms

Offset-ergmTerm

Terms with fixed coefficients

DiscUnif-ergmReference

Discrete Uniform reference

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

Filtering on arbitrary one-term model

Exponentiate a network's statistic

Take a natural logarithm of a network's statistic

NodematchFilter-ergmTerm

Filtering on nodematch

HammingConstantEdges-ergmProposal

Unif-ergmProposal

Unif-ergmReference

Continuous Uniform reference

StdNormal-ergmReference

Standard Normal reference

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

absdiff-ergmTerm

Absolute difference in nodal attribute

UnifNonObserved-ergmProposal

altkstar-ergmTerm

Alternating \(k\)-star

as.network.numeric

Create a Simple Random network of a Given Size

absdiffcat-ergmTerm

Categorical absolute difference in nodal attribute

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

Impose a curved structure on term parameters

approx.hotelling.diff.test

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

HammingTNT-ergmProposal

Modify terms' coefficient names

ANOVA for ERGM Fits

ConstantEdges-ergmProposal

MHp for edges constraints

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

b1degrange-ergmTerm

Degree range for the first mode in a bipartite network

b1degree-ergmTerm

Degree for the first mode in a bipartite network

b1degrees-ergmConstraint

Preserve the actor degree for bipartite networks

atleast-ergmTerm

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

atmost-ergmTerm

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

Evaluation on an induced subgraph

StdNormal-ergmProposal

b1mindegree-ergmTerm

Minimum degree for the first mode in a bipartite network

b1nodematch-ergmTerm

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

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

b2concurrent-ergmTerm

Concurrent node count for the second mode in a bipartite network

b1factor-ergmTerm

Factor attribute effect for the first mode in a bipartite network

b1twostar-ergmTerm

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

Dyadwise shared partners for dyads in the first bipartition

b1starmix-ergmTerm

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

Symmetrize-ergmTerm

Evaluation on symmetrized (undirected) network

as.rlebdm.ergm_conlist

Extract dyad-level ERGM constraint information into an rlebdm object

asymmetric-ergmTerm

Asymmetric dyads

TNT-ergmProposal

Default MH algorithm

b2factor-ergmTerm

Factor attribute effect for the second mode in a bipartite network

b2degree-ergmTerm

Degree for the second mode in a bipartite network

b2star-ergmTerm

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

b2starmix-ergmTerm

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

Dyadwise shared partners for dyads in the second bipartition

b2nodematch-ergmTerm

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

b2mindegree-ergmTerm

Minimum degree for the second mode in a bipartite network

b2degrange-ergmTerm

Degree range for the second mode in a bipartite network

b2degrees-ergmConstraint

Preserve the receiver degree for bipartite networks

attrcov-ergmTerm

Edge covariate by attribute pairing

b1concurrent-ergmTerm

Concurrent node count for the first mode in a bipartite network

b1star-ergmTerm

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

balance-ergmTerm

Balanced triads

b2sociality-ergmTerm

b1sociality-ergmTerm

b2twostar-ergmTerm

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

bd-ergmConstraint

Constrain maximum and minimum vertex degree

blockdiag-ergmConstraint

Block-diagonal structure constraint

concurrentties-ergmTerm

Concurrent tie count

Auxiliary for Controlling ERGM Fitting

control.ergm.godfather

Control parameters for ergm.godfather().

control.ergm.bridge

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

blocks-ergmConstraint

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

Locate and call an ERGM term initialization function.

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

Ensures an Ergm Term and its Arguments Meet Appropriate Conditions

concurrent-ergmTerm

Concurrent node count

coincidence-ergmTerm

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

ctriple-ergmTerm

Directed dyadwise shared partners

control.simulate.ergm

Auxiliary for Controlling ERGM Simulation

degcor-ergmTerm

Degree Correlation

cyclicalweights-ergmTerm

Cyclical weights

cyclicalties-ergmTerm

Auxiliary for Controlling ERGM Goodness-of-Fit Evaluation

Auxiliary for Controlling SAN

degcrossprod-ergmTerm

Degree Cross-Product

Directed edgewise shared partners

density-ergmTerm

degree-ergmTerm

degrange-ergmTerm

dyadnoiseTNT-ergmProposal

dyadnoise-ergmProposal

Computes and Returns the Degree Distribution Information for a Given Network

degrees-ergmConstraint

Preserve the degree of each vertex of the given network

Dyadwise shared partners

Directed non-edgewise shared partners

.dyads-ergmConstraint

A meta-constraint indicating handling of arbitrary dyadic constraints

Two versions of an E. Coli network dataset

dgwnsp-ergmTerm

Geometrically weighted non-edgewise shared partner distribution

degreedist-ergmConstraint

Preserve the degree distribution of the given network

degree1.5-ergmTerm

Degree to the 3/2 power

enformulate.curved-deprecated

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

dyadcov-ergmTerm

Dyadic covariate

dyadnoise-ergmConstraint

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

dgwesp-ergmTerm

Geometrically weighted edgewise shared partner distribution

dgwdsp-ergmTerm

Geometrically weighted dyadwise shared partner distribution

Sensible error and warning messages by ergm initializers

equalto-ergmTerm

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

edges-ergmConstraint

Preserve the edge count of the given network

edgecov-ergmTerm

Internal ergm Objects

Functions that have been removed from this package

ergm-deprecated

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

egocentric-ergmConstraint

Preserve values of dyads incident on vertices with given attribute

Number of edges in the network

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

Exponential-Family Random Graph Models

Global options and term options for the ergm package

Parallel Processing in the ergm Package

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

Fit, Simulate and Diagnose Exponential-Family Models for Networks

Compute the Sample Estimating Function Values of an ERGM.

Operations to map curved ergm() parameters onto canonical parameters

Calculate the exact loglikelihood for an ERGM

ergm.bridge.llr

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

Sample Space Constraints for Exponential-Family Random Graph Models

ergm.getnetwork

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

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

Reference Measures for Exponential-Family Random Graph Models

Metropolis-Hastings Proposal Methods for ERGM MCMC

Find a maximizer to the psuedolikelihood function

Keywords defined for Exponential-Family Random Graph Models

MCMC Hints for Exponential-Family Random Graph Models

ERGM Predictors and response for logistic regression calculation of MPLE

ergm.geodistdist

Calculate geodesic distance distribution for a network or edgelist

Terms used in Exponential Family Random Graph Models

ergm_mk_std_op_namewrap

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

Curved settings for geometric weights for the gw* terms

ergm_dyadgen_select

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

Internal Function to Perform Simulated Annealing

ergm_edgecov_args

A common pattern for obtaining an edge covariate

Initializes the parameters to bound degree during sampling

Dynamic ERGM keyword registry

ergm_Cstate_clear

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

ergm_MCMC_sample

Internal Function to Sample Networks and Network Statistics

ergm_state_cache

A rudimentary cache for large objects

Internal representation of an ergm network model

ergm_plot.mcmc.list

Plot MCMC list using lattice package graphics

ergm_symmetrize

Return a symmetrized version of a binary network

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

ergm_propagate_ext.encode

Extended states for submodels

ergm_proposal_table

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

ergm_preprocess_response

Update the network and the response argument.

Functions to initialize the ergm_proposal object

A Representation of ERGM state

fixedas-ergmConstraint

Preserve and preclude edges

Edgewise shared partners

fixallbut-ergmConstraint

Preserve the dyad status in all but the given edges

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

faux.dixon.high

Faux dixon High School as a network object

faux.magnolia.high

Goodreau's Faux Magnolia High School as a network object

faux.desert.high

Faux desert High School as a network object

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

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

Goodreau's Faux Mesa High School as a network object

gwb2degree-ergmTerm

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

gwdegree-ergmTerm

Geometrically weighted degree distribution

gwb1degree-ergmTerm

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

gwb1dsp-ergmTerm

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

Geometrically weighted dyadwise shared partner distribution

greaterthan-ergmTerm

Number of dyads with values strictly greater than a threshold

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

gwb2dsp-ergmTerm

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

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

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

idegree-ergmTerm

gwidegree-ergmTerm

Geometrically weighted in-degree distribution

idegrange-ergmTerm

In-degree range

Geometrically weighted edgewise shared partner distribution

Geometrically weighted nonedgewise shared partner distribution

gwodegree-ergmTerm

Geometrically weighted out-degree distribution

hamming-ergmConstraint

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

hamming-ergmTerm

Hamming distance

idegrees-ergmConstraint

Preserve indegree for directed networks

ininterval-ergmTerm

Number of dyads whose values are in an interval

intransitive-ergmTerm

Intransitive triads

idegree1.5-ergmTerm

In-degree to the 3/2 power

is.dyad.independent

Testing for dyad-independence

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

idegreedist-ergmConstraint

Preserve the indegree distribution

Testing for curved exponential family

isolatededges-ergmTerm

isolates-ergmTerm

Kapferer's tailor shop data

mcmc.diagnostics

Conduct MCMC diagnostics on a model fit

m2star-ergmTerm

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

Synthetic network with 20 nodes and 28 edges

mutual-ergmTerm

meandeg-ergmTerm

Mean vertex degree

Mixing matrix cells and margins

A logLik method for ergm fits.

Calculate the null model likelihood

nearsimmelian-ergmTerm

Near simmelian triads

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

nodeicov-ergmTerm

Main effect of a covariate for in-edges

nodeicovar-ergmTerm

Covariance of in-dyad values incident on each actor

nodeifactor-ergmTerm

Factor attribute effect for in-edges

nodal_attributes

Specifying nodal attributes and their levels

nodecov-ergmTerm

Main effect of a covariate

nodefactor-ergmTerm

Factor attribute effect

nodal_attributes-API

Helper functions for specifying nodal attribute levels

localtriangle-ergmTerm

Triangles within neighborhoods

nodecovar-ergmTerm

Covariance of undirected dyad values incident on each actor

nodeofactor-ergmTerm

Factor attribute effect for out-edges

nodematch-ergmTerm

Uniform homophily and differential homophily

observed-ergmConstraint

Preserve the observed dyads of the given network

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

opentriad-ergmTerm

Names of the parameters associated with an object.

odegreedist-ergmConstraint

Preserve the outdegree distribution

nodeocov-ergmTerm

Main effect of a covariate for out-edges

odegree1.5-ergmTerm

Out-degree to the 3/2 power

odegrange-ergmTerm

Out-degree range

Nonedgewise shared partners

odegree-ergmTerm

randomtoggle-ergmProposal

Propose a randomly selected dyad to toggle

nodeocovar-ergmTerm

Covariance of out-dyad values incident on each actor

nvattr.copy.network

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

odegrees-ergmConstraint

Preserve outdegree for directed networks

A lack-of-fit test for ERGMs

predict.formula

ERGM-based tie probabilities

sender-ergmTerm

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

search.ergmTerms

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

Generate networks with a given set of network statistics

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

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

receiver-ergmTerm

Receiver effect

RLE-Compressed Boolean Dyad Matrix

nodemix-ergmTerm

Nodal attribute mixing

Stratify Proposed Toggles by Mixing Type on a Vertex Attribute

simmelian-ergmTerm

Simmelian triads

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

smalldiff-ergmTerm

Number of ties between actors with similar attribute values

Sum of dyad values (optionally taken to a power)

sparse-ergmHint

simmelianties-ergmTerm

Ties in simmelian triads

sociality-ergmTerm

Undirected degree

Statnet Control

smallerthan-ergmTerm

Number of dyads with values strictly smaller than a threshold

summary_formula

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

triadcensus-ergmTerm

threetrail-ergmTerm

to_ergm_Cdouble.network

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

transitiveweights-ergmTerm

Transitive weights

Summarizing ERGM Model Fits

summary.ergm_model

Evaluate network summary statistics from an initialized ergm model

summary.formula

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

transitiveties-ergmTerm

Transitive ties

simulate.formula

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

transitive-ergmTerm

Transitive triads

triangle-ergmTerm

Draw from the distribution of an Exponential Family Random Graph Model

ttriple-ergmTerm

Transitive triples

twopath-ergmTerm

Weighted Median

Update the edges in a network based on a matrix

tripercent-ergmTerm

Triangle percentage

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.