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
public static final class FeatureFilter.ByPairwiseScore extends Object implements OptimizableFilter
ByPairwiseScore is used to filter SimilarityPairFeatures 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 SimilarityPairFeatures. The minimum value accepted must be less than the maximum value.
Since:
1.3
Author:
Keith James
See Also:

  • Constructor Details

    • ByPairwiseScore

      public ByPairwiseScore(double minScore, double maxScore)
      Creates a new ByPairwiseScore.
      Parameters:
      minScore - a double.
      maxScore - a double.

  • Method Details

    • accept

      public boolean accept(Feature f)
      Accept a Feature if it is an instance of SimilarityPairFeature and its score is <= filter's minimum score and >= filter's maximum score.
      Specified by:
      accept in interface FeatureFilter
      Parameters:
      f - a Feature.
      Returns:
      a boolean.

    • getMinScore

      public double getMinScore()
      getMinScore returns the minimum score accepted.
      Returns:
      a double.

    • getMaxScore

      public double getMaxScore()
      getMaxScore returns the maximum score accepted.
      Returns:
      a double.

    • equals

      public boolean equals(Object o)
      Overrides:
      equals in class Object

    • hashCode

      public int hashCode()
      Overrides:
      hashCode in class Object

    • isProperSubset

      public boolean isProperSubset(FeatureFilter sup)
      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 interface OptimizableFilter
      Parameters:
      sup - the potential super set
      Returns:
      true if sup contains all features contained by this filter

    • isDisjoint

      public boolean isDisjoint(FeatureFilter filt)
      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 interface OptimizableFilter

    • toString

      public String toString()
      Overrides:
      toString in class Object