OnASSiS-package	Onassis
Onassis-package	Onassis
annotate	annotate
annotate,data.frame,character,character-method	annotate
annotateDF	annotateDF
annotateDF,EntityFinder,data.frame,character,CMoptions-method	annotateDF
annotateTissueDisease	annotateTissueDisease
CaseMatch	CaseMatch
CaseMatch,CMoptions-method	CaseMatch
CaseMatch<-	CaseMatch
CaseMatch<-,CMoptions-method	CaseMatch
CMdictionary	CMdictionary
CMdictionary-class	CMdictionary-class
CMoptions	CMoptions
CMoptions-class	CMoptions-class
collapse	collapse
collapse,Onassis-method	collapse
compare	compare
compare,Onassis-method	compare
connectToGEODB	GEOHandler-functions
connectToGEODB,	GEOHandler-functions
create_score_matrix	createScoreMatrix
dictInfo	dictInfo
dictInfo,CMdictionary-method	dictInfo
dictInfo<-	dictInfo
dictInfo<-,CMdictionary-method	dictInfo
dictionary	dictionary
dictionary,Onassis-method	dictionary
dictionary<-	dictionary
dictionary<-,Onassis-method	dictionary
dictRef	dictRef
dictRef,CMdictionary-method	dictRef
dictRef<-	dictRef
dictRef<-,CMdictionary-method	dictRef
dictTypes	dictTypes
dict_location	dict_location
dict_location,CMdictionary-method	dict_location
dict_location<-	dict_location
dict_location<-,CMdictionary-method	dict_location
entities	entities
entities,Onassis-method	entities
entities<-	entities
entities<-,Onassis-method	entities
EntityFinder	EntityFinder
EntityFinder-class	EntityFinder-class
experiment_types	experiment_types
filterconcepts	filterconcepts
filterconcepts,Onassis-method	filterconcepts
filterTerms	filterTerms
FindAllMatches	FindAllMatches
FindAllMatches,CMoptions-method	FindAllMatches
FindAllMatches<-	FindAllMatches
FindAllMatches<-,CMoptions-method	FindAllMatches
findEntities	findEntities
findEntities,EntityFinder,character,logical,character,CMoptions,CMdictionary-method	findEntities
findHealthy	findHealthy
GEOHandler-function	GEOHandler-functions
getGEOMetadata	getGEOMetadata
groupConfig	groupConfig
groupConfig,Similarity-method	groupConfig
groupConfig<-	groupConfig
groupConfig<-,Similarity-method	groupConfig
groupsim	groupsim
groupsim,Similarity,character,character-method	groupsim
groupwiseConfigRef	groupwiseConfigRef
groupwiseConfigRef,Similarity-method	groupwiseConfigRef
groupwiseConfigRef<-	groupwiseConfigRef
groupwiseConfigRef<-,Similarity-method	groupwiseConfigRef
icConfig	icConfig
icConfig,Similarity-method	icConfig
icConfig<-	icConfig
icConfig<-,Similarity-method	icConfig
listCMOptions	listCMOptions
listSimilarities	listSimilarities
mergeonassis	mergeonassis
mergeonassis,Onassis,Onassis-method	mergeonassis
multisim	multisim
multisim,list,list,character,character-method	multisim
OnASSiS	Onassis
Onassis	Onassis
Onassis-class	Onassis-class
ontology	ontology
ontology,Similarity-method	ontology
ontology<-	ontology
ontology<-,Similarity-method	ontology
OrderIndependentLookup	OrderIndependentLookup
OrderIndependentLookup,CMoptions-method	OrderIndependentLookup
OrderIndependentLookup<-	OrderIndependentLookup
OrderIndependentLookup<-,CMoptions-method	OrderIndependentLookup
organism_types	organism_types
pairsim	pairsim
pairsim,Similarity,character,character-method	pairsim
pairwiseConfig	pairwiseConfig
pairwiseConfig,Similarity-method	pairwiseConfig
pairwiseConfig<-	pairwiseConfig
pairwiseConfig<-,Similarity-method	pairwiseConfig
pairwiseConfigRef	pairwiseConfigRef
pairwiseConfigRef,Similarity-method	pairwiseConfigRef
pairwiseConfigRef<-	pairwiseConfigRef
pairwiseConfigRef<-,Similarity-method	pairwiseConfigRef
paramValueIndex	paramValueIndex
paramValueIndex,CMoptions-method	paramValueIndex
paramValueIndex<-	paramValueIndex
paramValueIndex<-,CMoptions-method	paramValueIndex
samplesim	samplesim
samplesim,Similarity,character,character,data.frame-method	samplesim
scores	scores
scores,Onassis-method	scores
scores<-	scores
scores<-,Onassis-method	scores
SearchStrategy	SearchStrategy
SearchStrategy,CMoptions-method	SearchStrategy
SearchStrategy<-	SearchStrategy
SearchStrategy<-,CMoptions-method	SearchStrategy
semanticdifference	semanticdifference
show,CMoptions-method	CMoptions-class
sim	sim
sim,Onassis-method	sim
simil	simil
simil,Onassis-method	simil
simil<-	simil
simil<-,Onassis-method	simil
Similarity	Similarity
Similarity-class	Similarity-class
similarityInstance	similarityInstance
similarityInstance,Similarity-method	similarityInstance
similarityInstance<-	similarityInstance
similarityInstance<-,Similarity-method	similarityInstance
Stemmer	Stemmer
Stemmer,CMoptions-method	Stemmer
Stemmer<-	Stemmer
Stemmer<-,CMoptions-method	Stemmer
StopWords	StopWords
StopWords,CMoptions-method	StopWords
StopWords<-	StopWords
StopWords<-,CMoptions-method	StopWords
SynonymType	SynonymType
SynonymType,CMoptions-method	SynonymType
SynonymType<-	SynonymType
SynonymType<-,CMoptions-method	SynonymType
typeSystemRef	typeSystemRef
typeSystemRef,EntityFinder-method	typeSystemRef
typeSystemRef<-	typeSystemRef
typeSystemRef<-,EntityFinder-method	typeSystemRef
