[Scipy-tickets] [SciPy] #1486: 'sokalmichener' and 'rogerstanimoto' distances are the same
SciPy Trac
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Sun Aug 7 12:30:13 CDT 2011
#1486: 'sokalmichener' and 'rogerstanimoto' distances are the same
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Reporter: muellner | Owner: peridot
Type: defect | Status: new
Priority: normal | Milestone: Unscheduled
Component: scipy.spatial | Version: 0.9.0
Keywords: |
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Comment(by warren.weckesser):
A bit of googling suggests that Sokal-Michener is the same as "simple
matching", so the current implementation of this dissimilarity is
incorrect. It should be the same as spatial.distance.matching. The only
reference that I've found that shows Sokal-Michener dissimilarity being
the same as Rogers-Tanimoto dissimilarity is the manuscript "Properties of
Binary Vector Dissimilarity Measures" by Bin Zhang and Sargur N. Srihari
(it is currently in the top five hits of a google search for "sokal-
michener dissilimarity"). That paper could easily have a cut-and-paste
error; all other references that I've seen refer to Sokal-Michener as
"simple matching", and where formulas are given, the Sokal-Michener
formula is the simple matching formula.
The usual reference provided for Sokal-Michener dissimilarity is
Sokal RR, Michener CD. 1958. A statistical method for evaluating
systematic
relationships. University of Kansas Science Bulletin 38: 1409-1438.
The paper can be read online here:
http://www.biodiversitylibrary.org/item/23745#page/387/mode/1up
I haven't read it, so I can't say for sure that the reference is actually
the correct citation for the Sokal-Michener dissimilarity.
--
Ticket URL: <http://projects.scipy.org/scipy/ticket/1486#comment:3>
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