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object --+
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SequenceAdapter --+
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AlignedSequenceAdapter
Adapter, which wraps a gapped AbstractSequence object and makes it compatible with the MSA row/entry interface, expected by AbstractAlignment.
The adapter.residues property operates with an UngappedSequenceIndexer, which provides a gap-free view
of the underlying sequence.
The adapter.columns property operates with a standard ColumnIndexer, the same indexer which is used to provide
the column view in multiple alignments. Adapted sequences therefore act
as alignment rows and allow for MSA-column-oriented indexing.
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| ColumnIndexer |
columns Provides 1-based access to the respective columns in the MSA. |
| UngappedSequenceIndexer |
residues Provides 1-based access to the residues of the unaligned (ungapped) sequence. |
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Inherited from Inherited from |
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| Method Details |
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x.__init__(...) initializes x; see help(type(x)) for signature
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Return the ungapped sequence rank corresponding to the specified MSA
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Return the MSA column number corresponding to the specified ungapped
sequence
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| Property Details |
columnsProvides 1-based access to the respective columns in the MSA.
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residuesProvides 1-based access to the residues of the unaligned (ungapped) sequence.
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