Functions and datasets for maximum likelihood fitting of some classes of graphical Markov models.

Author | Giovanni M. Marchetti, Mathias Drton, Kayvan Sadeghi |

Date of publication | 2015-01-21 12:47:19 |

Maintainer | Giovanni M. Marchetti <giovanni.marchetti@disia.unifi.it> |

License | GPL (>= 2) |

Version | 2.3 |

**adjMatrix:** Adjacency matrix of a graph

**AG:** Ancestral graph

**allEdges:** All edges of a graph

**anger:** Anger data

**basiSet:** Basis set of a DAG

**bfsearch:** Breadth first search

**binve:** Inverts a marginal log-linear parametrization

**blkdiag:** Block diagonal matrix

**blodiag:** Block diagonal matrix

**checkIdent:** Identifiability of a model with one latent variable

**cmpGraph:** The complementary graph

**conComp:** Connectivity components

**correlations:** Marginal and partial correlations

**cycleMatrix:** Fundamental cycles

**DAG:** Directed acyclic graphs (DAGs)

**derived:** Data on blood pressure body mass and age

**DG:** Directed graphs

**diagv:** Matrix product with a diagonal matrix

**drawGraph:** Drawing a graph with a simple point and click interface.

**dSep:** d-separation

**edgematrix:** Edge matrix of a graph

**essentialGraph:** Essential graph

**findPath:** Finding paths

**fitAncestralGraph:** Fitting of Gaussian Ancestral Graph Models

**fitConGraph:** Fitting a Gaussian concentration graph model

**fitCovGraph:** Fitting of Gaussian covariance graph models

**fitDag:** Fitting of Gaussian DAG models

**fitDagLatent:** Fitting Gaussian DAG models with one latent variable

**fitmlogit:** Multivariate logistic models

**fundCycles:** Fundamental cycles

**ggm:** The package 'ggm': summary information

**glucose:** Glucose control

**grMAT:** Graph to adjacency matrix

**icf:** Iterative conditional fitting

**In:** Indicator matrix

**InducedGraphs:** Graphs induced by marginalization or conditioning

**isAcyclic:** Graph queries

**isADMG:** Acyclic directed mixed graphs

**isAG:** Ancestral graph

**isGident:** G-identifiability of an UG

**MAG:** Maximal ancestral graph

**makeMG:** Mixed Graphs

**marg.param:** Link function of marginal log-linear parameterization

**MarkEqMag:** Markov equivalence of maximal ancestral graphs

**MarkEqRcg:** Markov equivalence for regression chain graphs.

**marks:** Mathematics marks

**mat.mlogit:** Multivariate logistic parametrization

**Max:** Maximisation for graphs

**MRG:** Maximal ribbonless graph

**msep:** The m-separation criterion

**MSG:** Maximal summary graph

**null:** Null space of a matrix

**parcor:** Partial correlations

**pcor:** Partial correlation

**pcor.test:** Test for zero partial association

**plotGraph:** Plot of a mixed graph

**powerset:** Power set

**rcorr:** Random correlation matrix

**RepMarBG:** Representational Markov equivalence to bidirected graphs.

**RepMarDAG:** Representational Markov equivalence to directed acyclic...

**RepMarUG:** Representational Markov equivalence to undirected graphs.

**RG:** Ribbonless graph

**rnormDag:** Random sample from a decomposable Gaussian model

**rsphere:** Random vectors on a sphere

**SG:** summary graph

**shipley.test:** Test of all independencies implied by a given DAG

**SimpleGraphOperations:** Simple graph operations

**stress:** Stress

**surdata:** A simulated data set

**swp:** Sweep operator

**topSort:** Topological sort

**transClos:** Transitive closure of a graph

**triDec:** Triangular decomposition of a covariance matrix

**UG:** Defining an undirected graph (UG)

**unmakeMG:** Loopless mixed graphs components

**UtilityFunctions:** Utility functions

ggm

ggm/inst

ggm/inst/doc

ggm/inst/doc/mixed-graphs.pdf

ggm/NAMESPACE

ggm/NEWS

ggm/data

ggm/data/stress.rda

ggm/data/surdata.rda

ggm/data/glucose.rda

ggm/data/derived.rda

ggm/data/marks.rda

ggm/data/anger.rda

ggm/R

ggm/R/kayvan.R
ggm/R/functions.R
ggm/vignettes

ggm/vignettes/mixed-graphs.pdf

ggm/MD5

ggm/DESCRIPTION

ggm/man

ggm/man/powerset.Rd
ggm/man/stress.Rd
ggm/man/findPath.Rd
ggm/man/fitDag.Rd
ggm/man/derived.Rd
ggm/man/shipley.test.Rd
ggm/man/UtilityFunctions.Rd
ggm/man/MRG.Rd
ggm/man/Max.Rd
ggm/man/conComp.Rd
ggm/man/basiSet.Rd
ggm/man/fitDagLatent.Rd
ggm/man/blkdiag.Rd
ggm/man/icf.Rd
ggm/man/ggm.Rd
ggm/man/null.Rd
ggm/man/checkIdent.Rd
ggm/man/surdata.Rd
ggm/man/cycleMatrix.Rd
ggm/man/unmakeMG.Rd
ggm/man/isAcyclic.Rd
ggm/man/DG.Rd
ggm/man/adjMatrix.Rd
ggm/man/marg.param.Rd
ggm/man/mat.mlogit.Rd
ggm/man/MarkEqRcg.Rd
ggm/man/triDec.Rd
ggm/man/isGident.Rd
ggm/man/UG.Rd
ggm/man/dSep.Rd
ggm/man/DAG.Rd
ggm/man/pcor.Rd
ggm/man/fitCovGraph.Rd
ggm/man/RepMarBG.Rd
ggm/man/swp.Rd
ggm/man/drawGraph.Rd
ggm/man/isAG.Rd
ggm/man/makeMG.Rd
ggm/man/plotGraph.Rd
ggm/man/AG.Rd
ggm/man/MSG.Rd
ggm/man/anger.Rd
ggm/man/fitAncestralGraph.Rd
ggm/man/marks.Rd
ggm/man/glucose.Rd
ggm/man/blodiag.Rd
ggm/man/correlations.Rd
ggm/man/rcorr.Rd
ggm/man/fitConGraph.Rd
ggm/man/msep.Rd
ggm/man/essentialGraph.Rd
ggm/man/transClos.Rd
ggm/man/MAG.Rd
ggm/man/parcor.Rd
ggm/man/diagv.Rd
ggm/man/MarkEqMag.Rd
ggm/man/fitmlogit.Rd
ggm/man/In.Rd
ggm/man/RG.Rd
ggm/man/RepMarDAG.Rd
ggm/man/edgematrix.Rd
ggm/man/SG.Rd
ggm/man/topSort.Rd
ggm/man/grMAT.Rd
ggm/man/isADMG.Rd
ggm/man/rnormDag.Rd
ggm/man/SimpleGraphOperations.Rd
ggm/man/bfsearch.Rd
ggm/man/cmpGraph.Rd
ggm/man/InducedGraphs.Rd
ggm/man/pcor.test.Rd
ggm/man/RepMarUG.Rd
ggm/man/binve.Rd
ggm/man/allEdges.Rd
ggm/man/fundCycles.Rd
ggm/man/rsphere.Rd
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