A B C D E F G H I J K L M N O P Q R S T U V W X Z

H

HTML - class util.gen.HTML.

Static methods for HTML related tasks.

HTML() - Constructor for class util.gen.HTML

HTMLPath - Static variable in class bioroot.Util

HierarchicalClustering - class util.bio.cluster.HierarchicalClustering.

Calculates a Pearson correlation coefficient between all pairs of serialized float[]s, uses hierarchical clustering to group like arrays.

HierarchicalClustering(String[]) - Constructor for class util.bio.cluster.HierarchicalClustering

For stand alone use.

HierarchicalClustering(double, int, StringBuffer, File, boolean) - Constructor for class util.bio.cluster.HierarchicalClustering

For integration with CelFileQualityControl App.

HierarchicalClustering(File[]) - Constructor for class util.bio.cluster.HierarchicalClustering

For integration with Correlate App.

HierarchicalClustering(File[], File) - Constructor for class util.bio.cluster.HierarchicalClustering

For integration with CelProcessor.

Histogram - class util.gen.Histogram.

Generates histograms.

Histogram(double, double, int) - Constructor for class util.gen.Histogram

Histogram(double[], int, double) - Constructor for class util.gen.Histogram

Given an array of scores, creates a histogram of set number of bins, trims tails by a set fraction of the data.

HistogramSgrOrGrFile - class igb.util.HistogramSgrOrGrFile.

HistogramSgrOrGrFile() - Constructor for class igb.util.HistogramSgrOrGrFile

HouseBean - class util.apps.HouseBean.

HouseBean(String[]) - Constructor for class util.apps.HouseBean

hashSetToStringArray(HashSet) - Static method in class util.gen.Misc

Converts a hash to a String[] by direct cast.

header - Static variable in class util.bio.wrappers.Primer3Pick

hexamerGenerator() - Static method in class util.bio.xamer.XamerCounter

highestScoringWindow(int, int) - Method in class igb.util.Windows2HeatMapSgr

Looks forward at overlapping windows, returns highest score for the given bp position.

highestScoringWindow(int, int) - Method in class trans.main.WindowBlockMaker

Looks forward at overlapping windows, returns highest score for the given bp position.

httpDate() - Static method in class com.amazon.s3.AWSAuthConnection

Generate an rfc822 date for use in the Date HTTP header.