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Embarrassingly basic question about cladistic analysis
Mike Taylor writes:
> I'm sure plenty of people here can answer this ...
> When a paper presents a cladistic analysis and says something like
> "This analysis produced 72 equally most parsimonious trees (MPTs) with
> length = 783, consistency index (CI) = 0.526 and retention index (RI)
> = 0.687", where are the CI and RI values taken from? Because as I
> understand it, each of those 72 MPTs has its own CI and RI, correct?
> Do people just pick one of the MPTs at random and report its
> statistics? Do they take the highest CI and the lowest RI that occur
> in any of the MPTs? Do they report the statistics of a consensus
> tree? Or what.
Oh dear. Well, I did _say_ it was embarrassing.
I guess I must have been accidentally comparing CIs from consecutive
runs or something equally dumb. I have now just checked the results
for 1000 of my MPTs, and they are all the same. Also the RIs. So
this whole issue is a non-issue.
Sorry to have wasted anyone's time.
/o ) \/ Mike Taylor <firstname.lastname@example.org> http://www.miketaylor.org.uk
)_v__/\ "By filing this bug report you have challenged the honor of
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