Package Combiner
Interface Combiner
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- All Known Implementing Classes:
MaxDepthCombiner
public interface Combiner
Combines imputed and inferred genotypes to give a final called genotype
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Method Summary
All Methods Instance Methods Abstract Methods Modifier and Type Method Description double[][][]
combine(double[][][] called, double[][][] imputed, int[][][] reads)
Combines imputed and inferred genotypes for all genotypes in a tablejava.util.List<SingleGenotypeProbability>
combine(java.util.List<SingleGenotypeProbability> called, java.util.List<SingleGenotypeProbability> imputed, java.util.List<SingleGenotypeReads> reads)
Combines imputed and inferred genotypes for a list of genotypesorg.apache.commons.configuration2.tree.ImmutableNode
getConfig()
Get the config for the caller
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Method Detail
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combine
double[][][] combine(double[][][] called, double[][][] imputed, int[][][] reads)
Combines imputed and inferred genotypes for all genotypes in a table- Parameters:
called
- The called genotype probabilitiesimputed
- The imputed genotype probabilitiesreads
- The read counts for each genotype- Returns:
- The called probabilities
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combine
java.util.List<SingleGenotypeProbability> combine(java.util.List<SingleGenotypeProbability> called, java.util.List<SingleGenotypeProbability> imputed, java.util.List<SingleGenotypeReads> reads)
Combines imputed and inferred genotypes for a list of genotypes- Parameters:
called
- The called genotype probabilitiesimputed
- The imputed genotype probabilitiesreads
- The read counts for each genotype- Returns:
- The called probabilities
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getConfig
org.apache.commons.configuration2.tree.ImmutableNode getConfig()
Get the config for the caller- Returns:
- The config
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