Package org.biojava.bio.seq
Class FeatureFilter.ByPairwiseScore
java.lang.Object
org.biojava.bio.seq.FeatureFilter.ByPairwiseScore
- All Implemented Interfaces:
Serializable
,FeatureFilter
,OptimizableFilter
- Enclosing interface:
FeatureFilter
ByPairwiseScore
is used to filter
SimilarityPairFeature
s by their score. Features
are accepted if their score falls between the filter's minimum
and maximum values, inclusive. Features are rejected if they
are not SimilarityPairFeature
s. The minimum value
accepted must be less than the maximum value.- Since:
- 1.3
- Author:
- Keith James
- See Also:
-
Nested Class Summary
Nested classes/interfaces inherited from interface org.biojava.bio.seq.FeatureFilter
FeatureFilter.And, FeatureFilter.AnnotationContains, FeatureFilter.ByAncestor, FeatureFilter.ByAnnotation, FeatureFilter.ByAnnotationType, FeatureFilter.ByChild, FeatureFilter.ByClass, FeatureFilter.ByComponentName, FeatureFilter.ByDescendant, FeatureFilter.ByFeature, FeatureFilter.ByPairwiseScore, FeatureFilter.ByParent, FeatureFilter.BySequenceName, FeatureFilter.BySource, FeatureFilter.ByType, FeatureFilter.ContainedByLocation, FeatureFilter.FrameFilter, FeatureFilter.HasAnnotation, FeatureFilter.Not, FeatureFilter.OnlyChildren, FeatureFilter.OnlyDescendants, FeatureFilter.Or, FeatureFilter.OverlapsLocation, FeatureFilter.ShadowContainedByLocation, FeatureFilter.ShadowOverlapsLocation, FeatureFilter.StrandFilter
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Field Summary
Fields inherited from interface org.biojava.bio.seq.FeatureFilter
all, leaf, none, top_level
-
Constructor Summary
ConstructorsConstructorDescriptionByPairwiseScore
(double minScore, double maxScore) Creates a newByPairwiseScore
. -
Method Summary
Modifier and TypeMethodDescriptionboolean
Accept a Feature if it is an instance of SimilarityPairFeature and its score is invalid input: '<'= filter's minimum score and >= filter's maximum score.boolean
double
getMaxScore
returns the maximum score accepted.double
getMinScore
returns the minimum score accepted.int
hashCode()
boolean
isDisjoint
(FeatureFilter filt) Returns true if this filter is disjoint from filt - that is, there is no Feature that is accepted by both filters.boolean
Returns true if this filter is a proper subset of sup - that is, for every feature that matches this, it also matches sup.toString()
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Constructor Details
-
ByPairwiseScore
Creates a newByPairwiseScore
.- Parameters:
minScore
- adouble
.maxScore
- adouble
.
-
-
Method Details
-
accept
Accept a Feature if it is an instance of SimilarityPairFeature and its score is invalid input: '<'= filter's minimum score and >= filter's maximum score.- Specified by:
accept
in interfaceFeatureFilter
- Parameters:
f
- aFeature
.- Returns:
- a
boolean
.
-
getMinScore
getMinScore
returns the minimum score accepted.- Returns:
- a
double
.
-
getMaxScore
getMaxScore
returns the maximum score accepted.- Returns:
- a
double
.
-
equals
-
hashCode
-
isProperSubset
Description copied from interface:OptimizableFilter
Returns true if this filter is a proper subset of sup - that is, for every feature that matches this, it also matches sup. The empty filter is a proper subset of all filters. All filters are a proper subset of the all filter. All filters are proper subsets of themselves.- Specified by:
isProperSubset
in interfaceOptimizableFilter
- Parameters:
sup
- the potential super set- Returns:
- true if sup contains all features contained by this filter
-
isDisjoint
Description copied from interface:OptimizableFilter
Returns true if this filter is disjoint from filt - that is, there is no Feature that is accepted by both filters. The empty filter is disjoint from all other filters. The all filter is disjoint from none.- Specified by:
isDisjoint
in interfaceOptimizableFilter
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toString
-