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| ancGraph | Ancestor graphs |
| anGraph | Ancestor graphs |
| basiSet | Basis set of a DAG |
| bd | Simple graph operations |
| bfs | Breadth first search |
| ch | Simple graph operations |
| checkIdent | Identifiability of a model with one latent variable |
| cliques | Cliques of an undirected graph |
| clos | Graph operations |
| cmpGraph | The complementary graph |
| conComp | Connectivity components |
| correlations | Marginal and partial correlations |
| cycleMatrix | Fundamental cycles |
| DAG | Defining directed acyclic graphs (DAGs) |
| dSep | d-separation |
| edges | Edges of a graph |
| findPath | Finding paths |
| fitDag | Gaussian Markov models specified by a DAG |
| fitDagLatent | Gaussian DAG model with one latent variable |
| fitUg | Gaussian Markov models specified by an UG |
| fundCycles | Fundamental cycles |
| glucose | Glucose control |
| In | Indicator matrix |
| inducedConGraph | Graphs induced by marginalization or conditioning |
| inducedCovGraph | Graphs induced by marginalization or conditioning |
| InducedGraphs | Graphs induced by marginalization or conditioning |
| is.acyclic | Graph queries |
| is.Gident | G-identifiability of an UG |
| marks | Mathematics marks |
| pa | Simple graph operations |
| parcor | Partial correlations |
| pcor | Partial correlation |
| pcor.test | Test for zero partial association |
| rcorr | Random correlation matrix |
| rnormDag | Random sample from a decomposable Gaussian model |
| rsphere | Random vectors on a sphere |
| shipley.test | Test of all independencies implied by a DAG |
| swp | Sweep operator |
| topSort | Topological sort |
| triDec | Triangular decomposition of a covariance matrix |
| UG | Defining an undirected graph (UG) |