Class NucleotideLocationConverter
- java.lang.Object
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- de.charite.compbio.jannovar.hgvs.bridge.NucleotideLocationConverter
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public class NucleotideLocationConverter extends Object
Helper class for convertingNucleotidePointLocation
s andNucleotideRange
s toGenomePosition
s andGenomeInterval
s.- Author:
- Manuel Holtgrewe
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Constructor Summary
Constructors Constructor Description NucleotideLocationConverter()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description de.charite.compbio.jannovar.reference.GenomePosition
translateNucleotidePointLocation(de.charite.compbio.jannovar.reference.TranscriptModel tm, de.charite.compbio.jannovar.hgvs.nts.NucleotidePointLocation pos, de.charite.compbio.jannovar.hgvs.SequenceType sequenceType)
ConvertNucleotidePointLocation
on aTranscriptModel
to aGenomePosition
de.charite.compbio.jannovar.reference.GenomeInterval
translateNucleotideRange(de.charite.compbio.jannovar.reference.TranscriptModel tm, de.charite.compbio.jannovar.hgvs.nts.NucleotideRange range, de.charite.compbio.jannovar.hgvs.SequenceType sequenceType)
ConvertNucleotideRange
on aTranscriptModel
to aGenomePosition
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Method Detail
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translateNucleotidePointLocation
public de.charite.compbio.jannovar.reference.GenomePosition translateNucleotidePointLocation(de.charite.compbio.jannovar.reference.TranscriptModel tm, de.charite.compbio.jannovar.hgvs.nts.NucleotidePointLocation pos, de.charite.compbio.jannovar.hgvs.SequenceType sequenceType) throws CannotTranslateHGVSVariant
ConvertNucleotidePointLocation
on aTranscriptModel
to aGenomePosition
- Throws:
CannotTranslateHGVSVariant
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translateNucleotideRange
public de.charite.compbio.jannovar.reference.GenomeInterval translateNucleotideRange(de.charite.compbio.jannovar.reference.TranscriptModel tm, de.charite.compbio.jannovar.hgvs.nts.NucleotideRange range, de.charite.compbio.jannovar.hgvs.SequenceType sequenceType) throws CannotTranslateHGVSVariant
ConvertNucleotideRange
on aTranscriptModel
to aGenomePosition
- Throws:
CannotTranslateHGVSVariant
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