skbio.sequence.RNA.expand_degenerates

RNA.expand_degenerates()

Yield all possible definite versions of the sequence.

State: Stable as of 0.4.0.

Yields

GrammaredSequence – Definite version of the sequence.

See also

degenerate_map()

Notes

There is no guaranteed ordering to the definite sequences that are yielded.

Each definite sequence will have the same type, metadata, and positional metadata as the biological sequence.

Examples

>>> from skbio import DNA
>>> seq = DNA('TRG')
>>> seq_generator = seq.expand_degenerates()
>>> for s in sorted(seq_generator, key=str):
...     s
...     print('')
DNA
--------------------------
Stats:
    length: 3
    has gaps: False
    has degenerates: False
    has definites: True
    GC-content: 33.33%
--------------------------
0 TAG

DNA
--------------------------
Stats:
    length: 3
    has gaps: False
    has degenerates: False
    has definites: True
    GC-content: 66.67%
--------------------------
0 TGG