Function reference • SEMgraph

All functions
`alsData`	Amyotrophic Lateral Sclerosis (ALS) dataset
`ancestors()` `descendants()` `parents()` `siblings()`	Node ancestry utilities
`clusterGraph()`	Topological graph clustering
`clusterScore()`	Module scoring
`colorGraph()`	Vertex and edge graph coloring on the base of fitting
`cplot()`	Subgraph mapping
`dagitty2graph()`	Graph conversion from dagitty to igraph
`extractClusters()`	Cluster extraction utility
`factor.analysis()`	Factor analysis for high dimensional data
`gplot()`	Graph plotting with renderGraph
`graph2dag()`	Convert directed graphs to directed acyclic graphs (DAGs)
`graph2dagitty()`	Graph conversion from igraph to dagitty
`graph2lavaan()`	Graph to lavaan model
`kegg.pathways`	KEGG pathways
`kegg`	KEGG interactome
`lavaan2graph()`	lavaan model to graph
`localCI.test()`	Conditional Independence (CI) local tests of an acyclic graph
`mergeNodes()`	Graph nodes merging by a membership attribute
`modelSearch()`	Optimal model search strategies
`orientEdges()`	Assign edge orientation of an undirected graph
`pairwiseMatrix()`	Pairwise plotting of multivariate data
`parameterEstimates()`	Parameter Estimates of a fitted SEM
`pathFinder()`	Perturbed path search utility
`predictSink()`	SEM-based out-of-sample predictions
`properties()`	Graph properties summary and graph decomposition
`resizeGraph()`	Interactome-assisted graph re-seizing
`sachs`	Sachs multiparameter flow cytometry data and consensus model
`SEMace()`	Compute the Average Causal Effect (ACE) for a given source-sink pair
`SEMbap()`	Bow-free covariance search and data de-correlation
`SEMdag()`	Estimate a DAG from an input (or empty) graph
`SEMdci()`	SEM-based differential network analysis
`SEMgsa()`	SEM-based gene set analysis
`SEMpath()`	Search for directed or shortest paths between pairs of source-sink nodes
`SEMrun()`	Fit a graph as a Structural Equation Model (SEM)
`SEMtree()`	Tree-based structure learning methods
`Shipley.test()`	Missing edge testing implied by a DAG with Shipley's basis-set
`summary(<GGM>)`	GGM model summary
`summary(<RICF>)`	RICF model summary
`transformData()`	Transform data methods
`weightGraph()`	Graph weighting methods

Reference

All functions