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Class Summary |
| AppDataReference |
Form, accessors and validation for ApplicationData references in vamsas
document. |
| DocumentStuff |
various vamsas-client independent helpers for creating and manipulating the
vamsasDocument Vobject |
| Format |
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| GlyphDictionary |
dict attribute values for glyph symbol sets found in
uk.ac.vamsas.objects.core.AnnotationElement TODO: add validators and
multilength symbols. |
| MapList |
MapList Simple way of bijectively mapping a non-contiguous linear range to
another non-contiguous linear range Use at your own risk! TODO: efficient
implementation of private posMap method TODO: test/ensure that sense of from
and to ratio start position is conserved (codon start position recovery)
TODO: optimize to use int[][] arrays rather than vectors. |
| Mapping |
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| Properties |
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| ProvenanceStuff |
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| Range |
Utilities for working with RangeType and MapType objects. |
| Seq |
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| SeqAln |
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| SeqSet |
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| SymbolDictionary |
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| Trees |
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