A B C D E F G H I K L M N O P R S T U V W
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G
- getArray() - Method in class Mask.Mask
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Returns an array of masked genotypes (true = masked, false = unmasked).
- getArray(int, int) - Method in interface Files.VCFMappers.Mapper
- getBestParameter() - Method in class Utils.Optimize
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Returns the optimized parameters
- getBestValue() - Method in class Utils.Optimize
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Returns the optimized value
- getChrom() - Method in class Files.VCFData.Position
- getData() - Method in class Files.VCF
- getFormat() - Method in class Files.VCFData.Position
- getFormatDefintion(String) - Method in class Files.VCFData.Meta
- getID() - Method in class Files.VCFData.FilterDefinition
- getID() - Method in class Files.VCFData.FormatDefinition
- getID() - Method in class Files.VCFData.InfoDefinition
- getInfoDefinitions() - Method in class Files.VCFData.Meta
- getInfoDefintion(String) - Method in class Files.VCFData.Meta
- getList() - Method in class Utils.TopQueue
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Returns the entries in the queue as an ordered list
- getList(int) - Method in class Utils.TopQueue
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Returns the entries in the queue as an ordered list.
- getMap() - Method in class Utils.TopQueue
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Get a (unsorted) map of entries and their values.
- getMeta() - Method in class Files.VCF
- getMeta(String) - Method in class Files.PlinkNumeric
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Returns the meta data associated with a sample
- getMeta(String) - Method in class Files.PlinkPed
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Returns the meta data associated with a sample
- getMetaHead() - Method in class Files.PlinkNumeric
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Returns the meta header data - i.e.
- getPosition() - Method in class Files.VCFData.Position
- getPosition(String, String) - Method in class Files.VCFData.Data
- getPositions() - Method in class Files.VCFData.Data
- getSample() - Method in class Mask.SampleSnp
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Get the sample
- getSamples() - Method in class Files.PlinkNumeric
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Returns the samples associated with this Plink object
- getSamples() - Method in class Files.PlinkPed
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Returns the samples associated with this Plink object
- getSamples() - Method in class Files.VCFData.Data
- getSet() - Method in class Mask.Mask
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Returns a list of masked genotypes.
- getSimilar(int) - Method in class Similarity.CalculatedSimilar
- getSimilar(int) - Method in interface Similarity.Similar
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Get an array of most similar sites for the given site
- getSimilar(int) - Method in class Similarity.StoredSimilar
- getSnp() - Method in class Mask.SampleSnp
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Get the SNP
- getSNPs() - Method in class Files.PlinkNumeric
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Returns the SNPs associated with this Plink object
- getValue(Position, int, FormatDefinition) - Method in class Files.VCFData.Data
- getValue(Position, String, FormatDefinition) - Method in class Files.VCFData.Data
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