FlowGraph               Construct FlowGraph object
L                       Get directed adjacency matrix.
LatentDigraph           Construct a LatentDigraph object
LatentDigraphFixedOrder
                        Construct LatentDigraphFixedOrder object
MixedGraph              Construct MixedGraph object
O                       Get adjacency matrix for bidirected part.
SEMID-package           SEMID package documentation.
ZUTA                    Check the Zero Upper Triangular Assumption
ancestors               All ancestors of a collection of nodes
ancestralID             Determines which edges in a mixed graph are
                        ancestralID-identifiable
ancestralIdentifyStep   Perform one iteration of ancestral
                        identification.
bidirectedComponents    Get bidirected components of a mixed graph
checkLocalBBCriterion   Check Local BB-Criterion
checkMatchingCriterion
                        Check Matching Criterion
children                All children of a collection of nodes.
createAncestralIdentifier
                        Create an ancestral identification function.
createEdgewiseIdentifier
                        Create an edgewise identification function
createHtcIdentifier     Create an htc identification function.
createIdentifierBaseCase
                        Create an identifier base case
createLFHtcIdentifier   Create a latent-factor half-trek critierion
                        identification function.
createLFIdentifierBaseCase
                        Create an latent identifier base case
createSimpleBiDirIdentifier
                        Identify bidirected edges if all directed edges
                        are identified
createTrGraph           Helper function to create a graph encoding trek
                        reachable relationships.
createTrekFlowGraph     Helper function to create a flow graph.
createTrekSeparationIdentifier
                        Create an trek separation identification
                        function
descendants             Get descendants of a collection of observed
                        nodes
edgewiseID              Determines which edges in a mixed graph are
                        edgewiseID-identifiable
edgewiseIdentifyStep    Perform one iteration of edgewise
                        identification.
edgewiseTSID            Determines which edges in a mixed graph are
                        edgewiseID+TS identifiable
extmID                  Check Extended M-Identifiability
findColumnsWithSumOne   A Helper Function for Check ZUTA
flowBetween             Flow from one set of nodes to another.
generalGenericID        A general generic identification algorithm
                        template.
getAncestors            Get getAncestors of nodes in a graph.
getDescendants          Get descendants of nodes in a graph.
getHalfTrekSystem       Determines if a half-trek system exists in the
                        mixed graph.
getMaxFlow              Size of largest HT system Y satisfying the HTC
                        for a node v except perhaps having
                        |getParents(v)| < |Y|.
getMixedCompForNode     Get the mixed component of a node in a mixed
                        subgraph.
getMixedGraph           Get the corresponding mixed graph
getParents              Get getParents of nodes in a graph.
getSiblings             Get getSiblings of nodes in a graph.
getTrekSystem           Determines if a trek system exists in the mixed
                        graph.
globalID                Determines whether a mixed graph is globally
                        identifiable.
graphID                 Identifiability of linear structural equation
                        models.
graphID.ancestralID     Determine generic identifiability of an acyclic
                        mixed graph using ancestral decomposition.
graphID.decompose       Determine generic identifiability by Tian
                        Decomposition and HTC
graphID.genericID       Determine generic identifiability of a mixed
                        graph.
graphID.htcID           Determines if a mixed graph is
                        HTC-identifiable.
graphID.main            Helper function to handle a graph component.
graphID.nonHtcID        Check for generic infinite-to-one via the
                        half-trek criterion.
htcID                   Determines which edges in a mixed graph are
                        HTC-identifiable.
htcIdentifyStep         Perform one iteration of HTC identification.
htr                     Get all HTR nodes from a set of nodes in a
                        graph.
htrFrom                 Half trek reachable nodes.
inducedSubgraph         Get the induced subgraph on a collection of
                        nodes
isSibling               Are two nodes siblings?
latentDigraphHasSimpleNumbering
                        Checks that a LatentDigraph has appropriate
                        node numbering
latentNodes             Get all latent nodes in the graph.
lfhtcID                 Determines which edges in a latent digraph are
                        LF-HTC-identifiable.
lfhtcIdentifyStep       Perform one iteration of latent-factor HTC
                        identification.
mID                     Check M-Identifiability.
mixedGraphHasSimpleNumbering
                        Checks that a MixedGraph has appropriate node
                        numbering
nodes                   Get all nodes in the graph.
numLatents              Number of latent nodes in the graph.
numNodes                Number of nodes in the graph.
numObserved             Number of observed nodes in the graph.
observedNodes           Get all observed nodes in the graph.
observedParents         Get the observed parents on a collection of
                        nodes
parents                 All parents of a collection of nodes.
plot.LatentDigraph      Plots the latent digraph
plotLatentDigraph       Plot a latent factor graph
plotMixedGraph          Plot a mixed graph
print.GenericIDResult   Prints a GenericIDResult object
print.LfhtcIDResult     Prints a LfhtcIDResult object
print.SEMIDResult       Prints a SEMIDResult object
print.ZUTAresult        Prints a ZUTAresult object
print.extmIDresult      Prints a extmIDresult object
print.mIDresult         Prints a mIDresult object
semID                   Identifiability of linear structural equation
                        models.
siblings                All siblings of a collection of nodes
stronglyConnectedComponent
                        Strongly connected component
subsetsOfSize           Returns all subsets of a certain size
tianComponent           Returns the Tian c-component of a node
tianDecompose           Performs the tian decomposition on the mixed
                        graph
tianIdentifier          Identifies components in a tian decomposition
tianSigmaForComponent   Globally identify the covariance matrix of a
                        C-component
toEx                    Transforms a vector of node indices in the
                        internal rep. into external numbering
toIn                    Transforms a vector of given node indices into
                        their internal numbering
trFrom                  Trek reachable nodes.
trekSeparationIdentifyStep
                        Perform one iteration of trek separation
                        identification.
updateEdgeCapacities    Update edge capacities.
updateVertexCapacities
                        Update vertex capacities.
validateLatentNodesAreSources
                        A helper function to validate that latent nodes
                        in a LatentDigraph are sources.
validateMatrices        A helper function to validate input matrices.
validateMatrix          A helper function to validate an input matrix.
validateNodes           A helper function to validate if input nodes
                        are valid.
validateVarArgsEmpty    A helper function to validate that there are no
                        variable arguments
