Source code for abydos.distance._sokal_sneath_ii

# Copyright 2018-2020 by Christopher C. Little.
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"""abydos.distance._sokal_sneath_ii.

Sokal & Sneath II similarity
"""

from ._token_distance import _TokenDistance

__all__ = ['SokalSneathII']


[docs]class SokalSneathII(_TokenDistance): r"""Sokal & Sneath II similarity. For two sets X and Y, Sokal & Sneath II similarity :cite:`Sokal:1963` is .. math:: sim_{SokalSneathII}(X, Y) = \frac{|X \cap Y|} {|X \cap Y| + 2|X \triangle Y|} This is the second of five "Unnamed coefficients" presented in :cite:`Sokal:1963`. It corresponds to the "Unmatched pairs carry twice the weight of matched pairs in the Denominator" with "Negative Matches in Numerator Excluded". "Negative Matches in Numerator Included" corresponds to the Rogers & Tanimoto similarity, :class:`.RogersTanimoto`. In :ref:`2x2 confusion table terms <confusion_table>`, where a+b+c+d=n, this is .. math:: sim_{SokalSneathII} = \frac{a}{a+2(b+c)} .. versionadded:: 0.4.0 """ def __init__(self, tokenizer=None, intersection_type='crisp', **kwargs): """Initialize SokalSneathII instance. Parameters ---------- tokenizer : _Tokenizer A tokenizer instance from the :py:mod:`abydos.tokenizer` package intersection_type : str Specifies the intersection type, and set type as a result: See :ref:`intersection_type <intersection_type>` description in :py:class:`_TokenDistance` for details. **kwargs Arbitrary keyword arguments Other Parameters ---------------- qval : int The length of each q-gram. Using this parameter and tokenizer=None will cause the instance to use the QGram tokenizer with this q value. metric : _Distance A string distance measure class for use in the ``soft`` and ``fuzzy`` variants. threshold : float A threshold value, similarities above which are counted as members of the intersection for the ``fuzzy`` variant. .. versionadded:: 0.4.0 """ super(SokalSneathII, self).__init__( tokenizer=tokenizer, intersection_type=intersection_type, **kwargs )
[docs] def sim(self, src, tar): """Return the Sokal & Sneath II similarity of two strings. Parameters ---------- src : str Source string (or QGrams/Counter objects) for comparison tar : str Target string (or QGrams/Counter objects) for comparison Returns ------- float Sokal & Sneath II similarity Examples -------- >>> cmp = SokalSneathII() >>> cmp.sim('cat', 'hat') 0.2 >>> cmp.sim('Niall', 'Neil') 0.125 >>> cmp.sim('aluminum', 'Catalan') 0.03225806451612903 >>> cmp.sim('ATCG', 'TAGC') 0.0 .. versionadded:: 0.4.0 """ if src == tar: return 1.0 self._tokenize(src, tar) a = self._intersection_card() b = self._src_only_card() c = self._tar_only_card() return a / (a + 2 * (b + c))
if __name__ == '__main__': import doctest doctest.testmod()