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P
- Pearson - Class in Correlation
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Calculates LD as a simple Pearson correlation
- Pearson() - Constructor for class Correlation.Pearson
- Phred - Class in Files.VCFData
- Phred() - Constructor for class Files.VCFData.Phred
- PlinkNumeric - Class in Files
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Class for dealing with data in the plink .raw format.
- PlinkNumeric(File) - Constructor for class Files.PlinkNumeric
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Constructor.
- PlinkNumeric(File, boolean) - Constructor for class Files.PlinkNumeric
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Constructor.
- PlinkNumeric(File, int) - Constructor for class Files.PlinkNumeric
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Constructor.
- PlinkNumeric(File, int, boolean) - Constructor for class Files.PlinkNumeric
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Constructor.
- PlinkPed - Class in Files
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Class for dealing with data in the plink .ped format.
- PlinkPed(File) - Constructor for class Files.PlinkPed
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Constructor.
- PlinkPed(File, int) - Constructor for class Files.PlinkPed
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Constructor.
- Position - Class in Files.VCFData
- Position(String[], Set<InfoDefinition>, Set<FormatDefinition>) - Constructor for class Files.VCFData.Position
- Position(String, String, String, String, String[], String, String, Map<InfoDefinition, String>, List<FormatDefinition>) - Constructor for class Files.VCFData.Position
- Position(String, Set<InfoDefinition>, Set<FormatDefinition>) - Constructor for class Files.VCFData.Position
- Progress - Interface in Utils
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Interface for classes that show some sort of progress to standard out
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