Package | Description |
---|---|
owltools.sim2 | |
owltools.sim2.io | |
owltools.sim2.scores |
Modifier and Type | Method and Description |
---|---|
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i)
Compare a named individual
i to itself. |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j)
Compare two named individuals
(i,j) . |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j) |
ElementPairScores |
AbstractOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j) |
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJ,
double minMaxIC)
Compare two named individuals
i , filtering on
minSimJ and minMaxIC |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j)
Compare a set of attributes against the named individual
i . |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j) |
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJPct,
double minMaxIC)
Compare a set of attributes against the named individual
i . |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> atts,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> objAs,
Set<org.semanticweb.owlapi.model.OWLClass> objBs) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> objAs,
Set<org.semanticweb.owlapi.model.OWLClass> objBs) |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> attsI,
Set<org.semanticweb.owlapi.model.OWLClass> attsJ) |
ElementPairScores |
SimpleOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> objAs,
Set<org.semanticweb.owlapi.model.OWLClass> objBs,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
OwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> objAs,
Set<org.semanticweb.owlapi.model.OWLClass> objBs,
double minSimJPct,
double minMaxIC) |
ElementPairScores |
FastOwlSim.getGroupwiseSimilarity(Set<org.semanticweb.owlapi.model.OWLClass> attsI,
Set<org.semanticweb.owlapi.model.OWLClass> attsJ,
double minSimJPct,
double minMaxIC) |
Modifier and Type | Method and Description |
---|---|
List<ElementPairScores> |
OwlSim.findMatches(org.semanticweb.owlapi.model.OWLNamedIndividual i,
String targetIdSpace) |
List<ElementPairScores> |
AbstractOwlSim.findMatches(org.semanticweb.owlapi.model.OWLNamedIndividual i,
String targetIdSpace) |
List<ElementPairScores> |
OwlSim.findMatches(org.semanticweb.owlapi.model.OWLNamedIndividual i,
String targetIdSpace,
double minSimJPct,
double minMaxIC) |
List<ElementPairScores> |
AbstractOwlSim.findMatches(org.semanticweb.owlapi.model.OWLNamedIndividual i,
String targetIdSpace,
double minSimJPct,
double minMaxIC) |
List<ElementPairScores> |
SimpleOwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace) |
List<ElementPairScores> |
OwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace)
Find all similar matches to a pseudo-individual with a set of attributes
when compared to loaded individuals using
getGroupwiseSimilarity
with default cutoffs. |
List<ElementPairScores> |
AbstractOwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace) |
List<ElementPairScores> |
SimpleOwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace,
double minSimJPct,
double minMaxIC) |
List<ElementPairScores> |
OwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace,
double minSimJPct,
double minMaxIC)
Find all similar matches to a pseudo-individual with a set of attributes
when compared to loaded individuals using
getGroupwiseSimilarity
with minSimJPct and minMaxIC cutoffs. |
List<ElementPairScores> |
FastOwlSim.findMatches(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace,
double minSimJPct,
double minMaxIC) |
List<ElementPairScores> |
FastOwlSim.findMatchesRefactored(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace) |
List<ElementPairScores> |
FastOwlSim.findMatchesRefactored(Set<org.semanticweb.owlapi.model.OWLClass> atts,
String targetIdSpace,
double minSimJPct,
double minMaxIC) |
List<ElementPairScores> |
SimpleOwlSim.findMatchesWithin(org.semanticweb.owlapi.model.OWLNamedIndividual i,
Set<org.semanticweb.owlapi.model.OWLNamedIndividual> candidateTargets) |
List<ElementPairScores> |
OwlSim.findMatchesWithin(org.semanticweb.owlapi.model.OWLNamedIndividual i,
Set<org.semanticweb.owlapi.model.OWLNamedIndividual> candidateTargets) |
List<ElementPairScores> |
FastOwlSim.findMatchesWithin(org.semanticweb.owlapi.model.OWLNamedIndividual i,
Set<org.semanticweb.owlapi.model.OWLNamedIndividual> candidateTargets) |
List<ElementPairScores> |
FastOwlSim.findMatchesWithin(Set<org.semanticweb.owlapi.model.OWLClass> atts,
Set<org.semanticweb.owlapi.model.OWLNamedIndividual> candidateTargetSet,
double minSimJPct,
double minMaxIC) |
Modifier and Type | Method and Description |
---|---|
void |
SimpleOwlSim.calculateCombinedScore(ElementPairScores eps,
double maxIC,
double bmaAsymIC) |
void |
OwlSim.calculateCombinedScore(ElementPairScores eps,
double maxIC,
double bmaAsymIC) |
void |
AbstractOwlSim.calculateCombinedScore(ElementPairScores s,
double maxMaxIC,
double maxBMA) |
protected void |
FastOwlSim.populateSimilarityMatrix(org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
ElementPairScores ijscores) |
Modifier and Type | Method and Description |
---|---|
void |
SimpleOwlSim.calculateCombinedScores(List<ElementPairScores> scoreSets,
double maxIC,
double bmaAsymIC) |
void |
OwlSim.calculateCombinedScores(List<ElementPairScores> scoreSets,
double maxIC,
double bmaAsymIC) |
void |
FastOwlSim.calculateCombinedScores(List<ElementPairScores> scoreSets,
double maxMaxIC,
double maxBMA)
Given a set of scorings between an individual i, and a set of individuals j1 ..jn ∈ J,
calculate the combined score for each i,j pair where j ∈ J
|
List<FastOwlSim.ClassCount> |
SimpleOwlSim.getCoAnnotatedClassesForMatches(List<ElementPairScores> matches,
Set<org.semanticweb.owlapi.model.OWLClass> atts) |
List<FastOwlSim.ClassCount> |
OwlSim.getCoAnnotatedClassesForMatches(List<ElementPairScores> matches,
Set<org.semanticweb.owlapi.model.OWLClass> atts) |
List<FastOwlSim.ClassCount> |
FastOwlSim.getCoAnnotatedClassesForMatches(List<ElementPairScores> matches,
Set<org.semanticweb.owlapi.model.OWLClass> atts) |
List<FastOwlSim.ClassCount> |
FastOwlSim.getCoAnnotatedClassesForMatches(List<ElementPairScores> matches,
Set<org.semanticweb.owlapi.model.OWLClass> atts,
int matchCutoff) |
Modifier and Type | Method and Description |
---|---|
void |
TabularRenderer.printPairScores(ElementPairScores scores) |
void |
SimResultRenderer.printPairScores(ElementPairScores scores) |
void |
OWLRenderer.printPairScores(ElementPairScores scores) |
void |
JSONRenderer.printPairScores(ElementPairScores scores) |
void |
FormattedRenderer.printPairScores(ElementPairScores ijscores) |
void |
DelimitedLineRenderer.printPairScores(ElementPairScores scores) |
Modifier and Type | Method and Description |
---|---|
int |
ElementPairScores.compareTo(ElementPairScores s2) |
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