API for d-cameron/StructuralVariantAnnotation
Variant annotations for structural variants
| Global functions | |
|---|---|
| .assertValidBreakpointGRanges | Source code |
| .breakpointRanges | Man page Source code |
| .calc_right_confidence_interval | Source code |
| .combineMatchingTranscripts | Source code |
| .constrict | Source code |
| .dispatchPerAllele_CollapsedVCF | Source code |
| .dispatchPerAllele_ExpandedVCF | Source code |
| .distance | Source code |
| .elementExtract.ANY | Source code |
| .elementExtract.List | Source code |
| .elementExtract.XStringSet | Source code |
| .expectMetadataInfo | Source code |
| .findOverlaps_queryIns_subjectDup | Source code |
| .hasMetadataInfo | Source code |
| .hasSingleAllelePerRecord | Source code |
| .isStructural | Source code |
| .isSymbolic | Source code |
| .mtLen | Source code |
| .pairwiseLCPrefix | Source code |
| .replaceNa | Source code |
| .replaceNull | Source code |
| .scoreByTranscripts | Source code |
| .svLen | Source code |
| .testfile | Source code |
| .testrecord | Source code |
| .testrecordv44 | Source code |
| .toVcfBreakendNotationAlt | Source code |
| .traversable_segments | Source code |
| .vcfAltToStrandPair | Source code |
| StructuralVariantAnnotation | Man page |
| align_breakpoints | Man page Source code |
| breakendRanges | Man page |
| breakendRanges,VCF-method | Man page |
| breakpointGRangesToVCF | Man page Source code |
| breakpointRanges | Man page |
| breakpointRanges,VCF-method | Man page |
| breakpointgr2bedpe | Man page Source code |
| breakpointgr2pairs | Man page Source code |
| calculateReferenceHomology | Man page Source code |
| countBreakpointOverlaps | Man page Source code |
| elementExtract | Man page |
| extractBreakpointSequence | Man page Source code |
| extractReferenceSequence | Man page Source code |
| findBreakpointOverlaps | Man page Source code |
| findInsDupOverlaps | Man page Source code |
| findTransitiveCalls | Man page Source code |
| hasPartner | Man page Source code |
| isStructural | Man page |
| isStructural,CollapsedVCF-method | Man page |
| isStructural,ExpandedVCF-method | Man page |
| isStructural,VCF-method | Man page |
| isSymbolic | Man page |
| isSymbolic,CollapsedVCF-method | Man page |
| isSymbolic,ExpandedVCF-method | Man page |
| numtDetect | Man page Source code |
| pairs2breakpointgr | Man page Source code |
| partner | Man page Source code |
| rtDetect | Man page Source code |
| simpleEventLength | Man page Source code |
| simpleEventType | Man page Source code |
