Class EnrichmentAlgorithm

    • Field Detail

      • HTML_BG_COLOR

        public static final java.lang.String[] HTML_BG_COLOR
      • HTML_BG_COLOR_TITLE

        public static final java.lang.String HTML_BG_COLOR_TITLE
        See Also:
        Constant Field Values
      • PRINT_SOMETHING_TIME

        public static long PRINT_SOMETHING_TIME
    • Constructor Detail

      • EnrichmentAlgorithm

        public EnrichmentAlgorithm​(GeneSets geneSets,
                                   int numberToSelect)
    • Method Detail

      • getMaxPvalueAdjusted

        public double getMaxPvalueAdjusted()
      • getOutput

        public java.lang.StringBuilder getOutput()
      • isShow

        protected boolean isShow​(Result result)
        Showld we show this result or should the output be filtered?
        Parameters:
        result -
        Returns:
      • print

        protected void print​(java.lang.String str)
      • select

        public Result select()
        Select the 'best' gene sets
        Returns:
      • setDebug

        public void setDebug​(boolean debug)
      • setFilterOutputGeneSets

        public void setFilterOutputGeneSets​(java.util.Set<java.lang.String> filterOutputGeneSets)
      • setHtmlTable

        public void setHtmlTable​(boolean htmlTable)
      • setMaxGeneSetSize

        public void setMaxGeneSetSize​(int maxGeneSetSize)
      • setMaxPValue

        public void setMaxPValue​(double maxPValue)
      • setMaxPvalueAdjusted

        public void setMaxPvalueAdjusted​(double maxPvalueAdjusted)
      • setMinGeneSetSize

        public void setMinGeneSetSize​(int minGeneSetSize)
      • setVerbose

        public void setVerbose​(boolean verbose)