skbio.sequence.GrammaredSequence.gaps

GrammaredSequence.gaps()[source]

Find positions containing gaps in the biological sequence.

State: Stable as of 0.4.0.

Returns

Boolean vector where True indicates a gap character is present at that position in the biological sequence.

Return type

1D np.ndarray (bool)

See also

has_gaps()

Examples

>>> from skbio import DNA
>>> s = DNA('AC-G-')
>>> s.gaps()
array([False, False,  True, False,  True], dtype=bool)