A.csr                   ~~data-name / kind ...
GDI_NCIThesaurus        Structures for working with formal
                        nomenclatures
LLGOMFcp                resources saved for computation of concept
                        probabilities for GO MF terms applied to human
                        LocusLink entries
OOC-class               Class "OOC" object-ontology complex
SGDIvocab               Vocabulary for genomic data integration
STMA                    Vocabulary from statistics theory and methods
                        abstracts
accessMat               matrix utilities for ontoTools.
buildGOgraph            build graphNEL corresponding to bioc GO
                        environment
compoundGraph-class     Class "compoundGraph" list representation of
                        multiple graph::graph objects
depthStruct             tools for manipulating depth concepts for
                        rooted DAGs
gomfAmat                sparse matrix representing accessibilities of
                        terms in GO MF graph; graph also documented
                        here
litOnto                 litOnto: graph illustrating the ontology
                        concept; litObj: matrix illustrating the
                        object-ontology mapping
namedSparse-class       Class "namedSparse" adds margin names to sparse
                        matrices
ontology-class          Class "ontology" wraps a rooted DAG with some
                        ontology metadata
ooMapLL2GOMFdemo        object-term mapping for human locuslink entries
                        and GO MF
otkvEnv2namedSparse     obtain sparse matrix representation of
                        key-value structures
rootedDAG-class         Class "rootedDAG"
semsim                  Compute semantic similarity measure for terms
                        in an object-ontology complex
taggedHierNomenclature-class
                        Class "taggedHierNomenclature" ~~~
toDot                   Methods for Function toDot in Package
                        'ontoTools' - should be replaced by Rgraphviz
                        facilities soon
