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- TextProgress - Class in Utils
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Draws and updates a progress bar to standard out
- TextProgress(long) - Constructor for class Utils.TextProgress
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Constructor
- toPhred(double) - Static method in class Files.VCFData.Phred
- topn(byte[][], int) - Method in class Correlation.Correlation
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Calculates all-against-all LD and returns the top n sites most in LD with each site.
- topn(byte[][], int, int) - Method in class Correlation.Correlation
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Calculates the top n sites most in LD with a single site.
- TopQueue<E extends java.lang.Comparable<E>,V extends java.lang.Comparable<V>> - Class in Utils
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Keeps track of the top n based on their assigned value.
- TopQueue(int) - Constructor for class Utils.TopQueue
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Constructor
- TopQueue(int, boolean) - Constructor for class Utils.TopQueue
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Constructor
- toString() - Method in enum Files.VCFData.DataType
- toString() - Method in class Files.VCFData.FilterDefinition
- toString() - Method in class Files.VCFData.FormatDefinition
- toString() - Method in class Files.VCFData.InfoDefinition
- toString() - Method in class Files.VCFData.Position
- toWriter(PrintWriter) - Method in class Files.VCFData.Data
- toWriter(PrintWriter) - Method in class Files.VCFData.Meta
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