Uses of Class
org.snpeff.geneSets.Result
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Packages that use Result Package Description org.snpeff.geneSets org.snpeff.geneSets.algorithm -
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Uses of Result in org.snpeff.geneSets
Methods in org.snpeff.geneSets with parameters of type Result Modifier and Type Method Description int
Result. compareTo(Result res)
Constructors in org.snpeff.geneSets with parameters of type Result Constructor Description Result(Result res)
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Uses of Result in org.snpeff.geneSets.algorithm
Methods in org.snpeff.geneSets.algorithm that return Result Modifier and Type Method Description protected Result
EnrichmentAlgorithmGreedy. greedyPvalue(Result prevResult)
Calculate best list of terms by adding a new term to a list that minimize p-value (rank sum)protected Result
EnrichmentAlgorithmGreedy. greedyPvalue(Result prevResult, int minGeneSetSize, int maxGeneSetSize)
Calculate best list of terms by adding a new term to a list that minimize p-value (rank sum) Only look for genesets within [minGeneSetSize, maxGeneSetSize] size rangeprotected Result
EnrichmentAlgorithmGreedyVariableSize. greedyPvalue(Result prevResult)
Find best p-value using a greedy algorithm (smaller gene sets first)Result
EnrichmentAlgorithm. select()
Select the 'best' gene setsResult
EnrichmentAlgorithmGreedy. select()
Select the 'best' gene setsMethods in org.snpeff.geneSets.algorithm with parameters of type Result Modifier and Type Method Description protected Result
EnrichmentAlgorithmGreedy. greedyPvalue(Result prevResult)
Calculate best list of terms by adding a new term to a list that minimize p-value (rank sum)protected Result
EnrichmentAlgorithmGreedy. greedyPvalue(Result prevResult, int minGeneSetSize, int maxGeneSetSize)
Calculate best list of terms by adding a new term to a list that minimize p-value (rank sum) Only look for genesets within [minGeneSetSize, maxGeneSetSize] size rangeprotected Result
EnrichmentAlgorithmGreedyVariableSize. greedyPvalue(Result prevResult)
Find best p-value using a greedy algorithm (smaller gene sets first)protected boolean
EnrichmentAlgorithm. isShow(Result result)
Showld we show this result or should the output be filtered?protected boolean
EnrichmentAlgorithmGreedy. stopCriteria(Result result)
Stop criteriaprotected boolean
RankSumPValueGreedyAlgorithm. stopCriteria(Result result)
Stop criteria
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