Uses of Class
org.snpeff.geneSets.GeneSets
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Packages that use GeneSets Package Description org.snpeff.geneSets org.snpeff.geneSets.algorithm -
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Uses of GeneSets in org.snpeff.geneSets
Subclasses of GeneSets in org.snpeff.geneSets Modifier and Type Class Description class
GeneSetsRanked
A collection of GeneSets Genes are ranked (usually by 'value')Methods in org.snpeff.geneSets that return GeneSets Modifier and Type Method Description static GeneSets
GeneSets. factory(GoTerms goTerms)
Create gene sets form GoTermsGeneSets
GeneSet. getGeneSets()
Methods in org.snpeff.geneSets with parameters of type GeneSets Modifier and Type Method Description protected void
GeneSets. copy(GeneSets geneSets)
Copy all data from geneSetsvoid
GeneSet. setGeneSets(GeneSets geneSets)
Constructors in org.snpeff.geneSets with parameters of type GeneSets Constructor Description GeneSet(java.lang.String name, java.lang.String description, GeneSets geneSets)
Create an empty gene set (that belongs to a collection of gene sets 'geneSets')GeneSet(java.util.List<GeneSet> geneSetList, GeneSets geneSets)
Create a new GeneSet by joining all GeneSets in the listGeneSets(GeneSets geneSets)
GeneSetsRanked(GeneSets geneSets)
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Uses of GeneSets in org.snpeff.geneSets.algorithm
Constructors in org.snpeff.geneSets.algorithm with parameters of type GeneSets Constructor Description EnrichmentAlgorithm(GeneSets geneSets, int numberToSelect)
EnrichmentAlgorithmGreedy(GeneSets geneSets, int numberToSelect)
EnrichmentAlgorithmGreedyVariableSize(GeneSets geneSets, int numberToSelect)
FisherPValueAlgorithm(GeneSets geneSets, int numberToSelect)
FisherPValueGreedyAlgorithm(GeneSets geneSets, int numberToSelect)
LeadingEdgeFractionAlgorithm(GeneSets geneSets, int numberToSelect, boolean orderDescending)
NoneAlgorithm(GeneSets geneSets)
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