MolPhy-2.2

Kiyoshi Gotow gotow at VIR.BEKKOAME.OR.JP
Wed Mar 6 22:58:23 EST 1996


At  8:40 96.3.4 -0700, David Frederiksen wrote:

>   Now that I have results I am having a little trouble interpreting the
>results.  On most of my searches I was given more than one tree as the
>most likely tree.  There were two numbers that preceeded each one.  What
>do these numbers represent?  I am hoping that they are probability
>measures so i can accept or reject one of the trees with reasons other
>than beacaused they fit the theory I want.
>   Also, I have noticed that when you run the distance calculation,
>njdist, it gives you a distance matrix.  This doesn't not appear to
>fully scale the trees that protml produces, unlike the phylip dnaml
>package.  I am not all together familiar with the long hand statistical
>clustering analysis that is used to come up with these results and I am
>unable to scale my trees properly.  Can you suggest anything for scaling
>the trees that are produced in protml?
>
>Thank You For Your Time
>David Frederiksen

I think we had better continue our communication not on the mailing list
but by private mail, since the question you asked is so deeply related to
the interpretation of the results.

Although I am afraid that I can not be of further help, please e-mail the
results you got to me if you agree with me.

Kiyoshi Gotow, Ph.D.
Department of Human Life and Culture
Seitoku University
gotow at vir.bekkoame.or.jp





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