Package org.biojava.bio.seq.io.agave
Class SimpleAnnotFilter
java.lang.Object
org.biojava.bio.seq.io.agave.SimpleAnnotFilter
- All Implemented Interfaces:
AGAVEAnnotFilter
- Direct Known Subclasses:
Agave2AgaveAnnotFilter
,Embl2AgaveAnnotFilter
Basic implementation of AGAVEAnnotFilter
- Author:
- Hanning Ni Doubletwist Inc
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Field Summary
FieldsFields inherited from interface org.biojava.bio.seq.io.agave.AGAVEAnnotFilter
BOTH_FORWARD_COMPLEMENT, COMPLEMENT, FORWARD
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Method Summary
Modifier and TypeMethodDescriptiongetAccession
(Annotation annot) getAlignLength
(Annotation annot) getAlignUnits
(Annotation annot) getAltIds
(Annotation annot) getChromNum
(Annotation annot) getChromosome
(Annotation annot) getClassifyId
(Annotation annot) getClassifySystem
(Annotation annot) getClassifyType
(Annotation annot) getCloneId
(Annotation annot) getCloneLibrary
(Annotation annot) getConfidence
(Annotation annot) getCreateDate
(Annotation annot) getDbId
(Annotation annot) getDescription
(Annotation annot) getEcNumber
(Annotation annot) getElementId
(Annotation annot) String[]
getElementIds
(Annotation annot) String[]
getExonIds
(Annotation annot) getFeatureType
(Annotation annot) getGroupOrder
(Annotation annot) getIdAlias
(Annotation annot) getKeyword
(Annotation annot) getLabel
(Annotation annot) getMapLocation
(Annotation annot) getMapPosition
(Annotation annot) getMatchAlign
(Annotation annot) getMatchDesc
(Annotation annot) getMatchRegion
(Annotation annot) getMolType
(Annotation annot) getNote
(Annotation annot) getOrganism
(Annotation annot) getOS
(Annotation annot) getProperty
(Annotation annot, String type) ThomasD made this a bit safer...getQueryRegion
(Annotation annot) getRelatedAnnot
(Annotation annot) getResultType
(Annotation annot) getSequenceId
(Annotation annot) getTaxonId
(Annotation annot) getUpdateDate
(Annotation annot) getVersion
(Annotation annot) getXrefs
(Annotation annot)
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Field Details
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SIMPLE_ANNOT_FILTER_FACTORY
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Method Details
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getAccession
- Specified by:
getAccession
in interfaceAGAVEAnnotFilter
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getKeyword
- Specified by:
getKeyword
in interfaceAGAVEAnnotFilter
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getElementId
- Specified by:
getElementId
in interfaceAGAVEAnnotFilter
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getOrganism
- Specified by:
getOrganism
in interfaceAGAVEAnnotFilter
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getLabel
- Specified by:
getLabel
in interfaceAGAVEAnnotFilter
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getDescription
- Specified by:
getDescription
in interfaceAGAVEAnnotFilter
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getMatchAlign
- Specified by:
getMatchAlign
in interfaceAGAVEAnnotFilter
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getMatchRegion
- Specified by:
getMatchRegion
in interfaceAGAVEAnnotFilter
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getQueryRegion
- Specified by:
getQueryRegion
in interfaceAGAVEAnnotFilter
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getClassifySystem
- Specified by:
getClassifySystem
in interfaceAGAVEAnnotFilter
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getClassifyId
- Specified by:
getClassifyId
in interfaceAGAVEAnnotFilter
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getClassifyType
- Specified by:
getClassifyType
in interfaceAGAVEAnnotFilter
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getExonIds
- Specified by:
getExonIds
in interfaceAGAVEAnnotFilter
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getChromNum
- Specified by:
getChromNum
in interfaceAGAVEAnnotFilter
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getIdAlias
- Specified by:
getIdAlias
in interfaceAGAVEAnnotFilter
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getNote
- Specified by:
getNote
in interfaceAGAVEAnnotFilter
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getAltIds
- Specified by:
getAltIds
in interfaceAGAVEAnnotFilter
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getMapLocation
- Specified by:
getMapLocation
in interfaceAGAVEAnnotFilter
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getRelatedAnnot
- Specified by:
getRelatedAnnot
in interfaceAGAVEAnnotFilter
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getElementIds
- Specified by:
getElementIds
in interfaceAGAVEAnnotFilter
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getGroupOrder
- Specified by:
getGroupOrder
in interfaceAGAVEAnnotFilter
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getMatchDesc
- Specified by:
getMatchDesc
in interfaceAGAVEAnnotFilter
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getFeatureType
- Specified by:
getFeatureType
in interfaceAGAVEAnnotFilter
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getResultType
- Specified by:
getResultType
in interfaceAGAVEAnnotFilter
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getConfidence
- Specified by:
getConfidence
in interfaceAGAVEAnnotFilter
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getAlignLength
- Specified by:
getAlignLength
in interfaceAGAVEAnnotFilter
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getAlignUnits
- Specified by:
getAlignUnits
in interfaceAGAVEAnnotFilter
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getXrefs
- Specified by:
getXrefs
in interfaceAGAVEAnnotFilter
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getVersion
- Specified by:
getVersion
in interfaceAGAVEAnnotFilter
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getSequenceId
- Specified by:
getSequenceId
in interfaceAGAVEAnnotFilter
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getTaxonId
- Specified by:
getTaxonId
in interfaceAGAVEAnnotFilter
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getCloneId
- Specified by:
getCloneId
in interfaceAGAVEAnnotFilter
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getCloneLibrary
- Specified by:
getCloneLibrary
in interfaceAGAVEAnnotFilter
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getChromosome
- Specified by:
getChromosome
in interfaceAGAVEAnnotFilter
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getMapPosition
- Specified by:
getMapPosition
in interfaceAGAVEAnnotFilter
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getEcNumber
- Specified by:
getEcNumber
in interfaceAGAVEAnnotFilter
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getCreateDate
- Specified by:
getCreateDate
in interfaceAGAVEAnnotFilter
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getUpdateDate
- Specified by:
getUpdateDate
in interfaceAGAVEAnnotFilter
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getOS
- Specified by:
getOS
in interfaceAGAVEAnnotFilter
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getMolType
- Specified by:
getMolType
in interfaceAGAVEAnnotFilter
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getDbId
- Specified by:
getDbId
in interfaceAGAVEAnnotFilter
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getProperty
ThomasD made this a bit safer...- Specified by:
getProperty
in interfaceAGAVEAnnotFilter
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