Package org.snpeff.geneSets.algorithm
Class RankSumPValueGreedyAlgorithm
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- org.snpeff.geneSets.algorithm.EnrichmentAlgorithm
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- org.snpeff.geneSets.algorithm.EnrichmentAlgorithmGreedy
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- org.snpeff.geneSets.algorithm.EnrichmentAlgorithmGreedyVariableSize
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- org.snpeff.geneSets.algorithm.RankSumPValueGreedyAlgorithm
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public class RankSumPValueGreedyAlgorithm extends EnrichmentAlgorithmGreedyVariableSize
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Nested Class Summary
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Nested classes/interfaces inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithm
EnrichmentAlgorithm.EnrichmentAlgorithmType
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Field Summary
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Fields inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithmGreedy
adjustedPvalue, DEFAULT_MAX_PVALUE, maxPvalue, maxPvalueAjusted
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Fields inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithm
HTML_BG_COLOR, HTML_BG_COLOR_TITLE, HTML_TD_GENES_MAX_LEN, PRINT_SOMETHING_TIME
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Constructor Summary
Constructors Constructor Description RankSumPValueGreedyAlgorithm(GeneSetsRanked geneSets, int numberToSelect)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description protected boolean
stopCriteria(Result result)
Stop criteria-
Methods inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithmGreedyVariableSize
greedyPvalue, setInitialSize, setSizeGrowthFactor
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Methods inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithmGreedy
greedyPvalue, select, setAdjustedPvalue, setMaxGeneSetSize, setMaxPvalue, setMaxPvalueAjusted, setMinGeneSetSize, setVerbose
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Methods inherited from class org.snpeff.geneSets.algorithm.EnrichmentAlgorithm
getMaxPvalueAdjusted, getOutput, isShow, print, setDebug, setFilterOutputGeneSets, setHtmlTable, setMaxPValue, setMaxPvalueAdjusted
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Constructor Detail
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RankSumPValueGreedyAlgorithm
public RankSumPValueGreedyAlgorithm(GeneSetsRanked geneSets, int numberToSelect)
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Method Detail
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stopCriteria
protected boolean stopCriteria(Result result)
Stop criteria- Overrides:
stopCriteria
in classEnrichmentAlgorithmGreedy
- Parameters:
result
-- Returns:
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