org.pharmgkb.parser.vcf

Interface VcfTransformation

public interface VcfTransformation

A transformation applied to VCF data lines and metadata.

Method Summary

Modifier and Type	Method and Description
default boolean	transformDataLine(VcfMetadata metadata, VcfPosition position, java.util.List<VcfSample> sampleData) Modifies the arguments position and sampleData.
default void	transformMetadata(VcfMetadata metadata) Modifies the argument metadata.

Method Detail

transformMetadata

default void transformMetadata(@Nonnull
                               VcfMetadata metadata)

Modifies the argument metadata. The default method does nothing.

transformDataLine

default boolean transformDataLine(@Nonnull
                                  VcfMetadata metadata,
                                  @Nonnull
                                  VcfPosition position,
                                  @Nonnull
                                  java.util.List<VcfSample> sampleData)

Modifies the arguments position and sampleData. Should not modify metadata. The default method does nothing.

Returns:

If false, the VcfPosition will be removed