static MolecularSequence.Variant.Builder |
MolecularSequence.Variant.builder() |
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.cigar(java.lang.String cigar) |
Convenience method for setting cigar .
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.cigar(String cigar) |
Extended CIGAR string for aligning the sequence with reference bases.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.end(java.lang.Integer end) |
Convenience method for setting end .
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.end(Integer end) |
End position of the variant on the reference sequence.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.extension(java.util.Collection<Extension> extension) |
May be used to represent additional information that is not part of the basic definition of the element.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.extension(Extension... extension) |
May be used to represent additional information that is not part of the basic definition of the element.
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protected MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.from(MolecularSequence.Variant variant) |
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.id(java.lang.String id) |
Unique id for the element within a resource (for internal references).
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.modifierExtension(java.util.Collection<Extension> modifierExtension) |
May be used to represent additional information that is not part of the basic definition of the element and that
modifies the understanding of the element in which it is contained and/or the understanding of the containing
element's descendants.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.modifierExtension(Extension... modifierExtension) |
May be used to represent additional information that is not part of the basic definition of the element and that
modifies the understanding of the element in which it is contained and/or the understanding of the containing
element's descendants.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.observedAllele(java.lang.String observedAllele) |
Convenience method for setting observedAllele .
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.observedAllele(String observedAllele) |
An allele is one of a set of coexisting sequence variants of a gene ([SO:0001023](http://www.sequenceontology.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.referenceAllele(java.lang.String referenceAllele) |
Convenience method for setting referenceAllele .
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.referenceAllele(String referenceAllele) |
An allele is one of a set of coexisting sequence variants of a gene ([SO:0001023](http://www.sequenceontology.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.start(java.lang.Integer start) |
Convenience method for setting start .
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.start(Integer start) |
Start position of the variant on the reference sequence.
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.toBuilder() |
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MolecularSequence.Variant.Builder |
MolecularSequence.Variant.Builder.variantPointer(Reference variantPointer) |
A pointer to an Observation containing variant information.
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