%*%,namedSparse,namedSparse-method	namedSparse-class
%+%	namedSparse-class
+,namedSparse,namedSparse-method	namedSparse-class
A.csr	A.csr
accessMat	accessMat
accessMat,ontology-method	ontology-class
adjMat	compoundGraph-class
adjMat,compoundGraph-method	compoundGraph-class
AMN	namedSparse-class
Arith,namedSparse,namedSparse-method	namedSparse-class
as.matrix,namedSparse-method	namedSparse-class
as.matrix.ok	namedSparse-class
between	compoundGraph-class
between,compoundGraph-method	compoundGraph-class
buildGOgraph	buildGOgraph
child2parentMatDense	accessMat
child2parentMatSparse	accessMat
colinds	namedSparse-class
colinds,namedSparse,character-method	namedSparse-class
colSums	namedSparse-class
colSums,namedSparse,missing,missing-method	namedSparse-class
colSumsSp	namedSparse-class
compoundGraph-class	compoundGraph-class
conceptProbs	semsim
coverageMat	OOC-class
coverageMat,OOC-method	OOC-class
coverMat	accessMat
DAG	rootedDAG-class
DAG,rootedDAG-method	rootedDAG-class
daughterMat	accessMat
daughterSpMat	accessMat
depthStruct	depthStruct
dimnames,namedSparse-method	namedSparse-class
dimnames<-,namedSparse,list-method	namedSparse-class
DMdepth	depthStruct
exns2	namedSparse-class
getMatrix	accessMat
getMatrix,rootedDAG,character,character-method	rootedDAG-class
go1.5DAG	LLGOMFcp
gomfAmat	gomfAmat
goMFamat.1.4	LLGOMFcp
goMFamat.1.5	LLGOMFcp
goMFgraph.1.4	LLGOMFcp
goMFgraph.1.5	LLGOMFcp
goMFgraphDemo	gomfAmat
grList	compoundGraph-class
grList,compoundGraph-method	compoundGraph-class
litObj	litOnto
litOnto	litOnto
LL2GOMFcp.1.4	LLGOMFcp
LL2GOMFcp.1.5	LLGOMFcp
LL2GOMFooc1.5	LLGOMFcp
LL2GOMFooMap.1.4	LLGOMFcp
LL2GOMFooMap.1.5	LLGOMFcp
LLGOMFcp	LLGOMFcp
makeNamedSparse	namedSparse-class
makeOntology	ontology-class
makeOOC	OOC-class
makeSparseZero	namedSparse-class
mapNamesInds	namedSparse-class
mat	namedSparse-class
mat,namedSparse-method	namedSparse-class
maxval	namedSparse-class
maxval,matrix.csr-method	namedSparse-class
mkNS	namedSparse-class
name	ontology-class
name,ontology-method	ontology-class
namedSparse-class	namedSparse-class
ncol,namedSparse-method	namedSparse-class
newadj	accessMat
nrow,namedSparse-method	namedSparse-class
nsparse	namedSparse-class
ontoDepth	depthStruct
ontology	ontology-class
ontology,OOC-method	OOC-class
ontology-class	ontology-class
OOC-class	OOC-class
OOmap	OOC-class
OOmap,OOC-method	OOC-class
ooMapLL2GOMFdemo	ooMapLL2GOMFdemo
otkvEnv2namedSparse	otkvEnv2namedSparse
otkvList2namedSparse	otkvEnv2namedSparse
OVersion	ontology-class
OVersion,ontology-method	ontology-class
pms	semsim
rDAG	ontology-class
rDAG,ontology-method	ontology-class
revArcs	accessMat
root	rootedDAG-class
root,rootedDAG-method	rootedDAG-class
rootedDAG-class	rootedDAG-class
rowinds	namedSparse-class
rowinds,namedSparse,character-method	namedSparse-class
rowSums	namedSparse-class
rowSums,namedSparse,missing,missing-method	namedSparse-class
rowSumsSp	namedSparse-class
semsim	semsim
show,namedSparse-method	namedSparse-class
show,ontology-method	ontology-class
show,OOC-method	OOC-class
subsumers	semsim
sumSp	namedSparse-class
sumSpSLOW	namedSparse-class
t,namedSparse-method	namedSparse-class
toDot	toDot-methods
toDot,compoundGraph,character,list,list-method	compoundGraph-class
toDot,compoundGraph,character,list,missing-method	compoundGraph-class
toDot,compoundGraph,missing,list,missing-method	compoundGraph-class
toDot,graphNEL,character,list,list-method	toDot-methods
toDot,graphNEL,character,missing,list-method	toDot-methods
toDot,graphNEL,character,missing,missing-method	toDot-methods
toDot,graphNEL,missing,character,missing-method	toDot-methods
toDot,graphNEL,missing,list,list-method	toDot-methods
toDot,graphNEL,missing,list,missing-method	toDot-methods
toDot,graphNEL,missing,missing,list-method	toDot-methods
toDot,graphNEL,missing,missing,missing-method	toDot-methods
usageCount	semsim
[,namedSparse-method	namedSparse-class
