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B
- BiallelicFilter - Class in VCF.Filters
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Filters positions for biallelic positions
- BiallelicFilter() - Constructor for class VCF.Filters.BiallelicFilter
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Constructor
- BiallelicFilter(HierarchicalConfiguration<ImmutableNode>) - Constructor for class VCF.Filters.BiallelicFilter
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Constructor from a config (read in from a XML file)
- BiasedBinomialCaller - Class in Callers
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A biased binomial caller, that is one where each read is not equally likely in the case of a hetrozygote
- BiasedBinomialCaller(double, double) - Constructor for class Callers.BiasedBinomialCaller
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Creates a biased caller with the given error and bias
- BiasedBinomialCaller(HierarchicalConfiguration<ImmutableNode>) - Constructor for class Callers.BiasedBinomialCaller
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Creates the caller from the given configuration
- BinomialCaller - Class in Callers
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Simple binomial caller
- BinomialCaller(double) - Constructor for class Callers.BinomialCaller
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Creates the caller with the given error
- BinomialCaller(HierarchicalConfiguration<ImmutableNode>) - Constructor for class Callers.BinomialCaller
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Creates the caller from the given configuration
- brief(String) - Static method in class Utils.Log
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Log a new brief message
- BRIEF - Utils.Log.Level
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Only output brief messages
- BYSAMPLE - Accuracy.DepthMask.Method
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First select a sample at random then a maskable genotype from that sample
- BYSNP - Accuracy.DepthMask.Method
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First select a snp at random then a maskable genotype from that snp
- ByteMapper - Interface in VCF.Mappers
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Maps from a text string to a byte
- ByteToGeno - Class in VCF
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A simple convenience class used to convert a byte genotype to a text string representing it
- ByteToGeno() - Constructor for class VCF.ByteToGeno
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Default constructor
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