Help with user trees in KITSCH (Phylip 3.5c)

Bernard Khoo WCI bcek1 at mole.bio.cam.ac.uk
Tue Feb 7 09:12:13 EST 1995


Dear all

I've done a 100 times bootstrap analysis on an 11 member dataset. However, when
I try to run KITSCH on this dataset, specifying two user trees at the end as
below, the program refuses to accept the user trees, complaining that either
a parenthesis or semicolon must be missing.

[PROTDIST output x100]
2
(((scbrf,klbrf),cabrf),(((((hs2b,rat2b),xeno2b),dros2b),(sc2b,kl2b)),(pyrob,sul\
fb)));
(((scbrf,klbrf),cabrf),(((((hs2b,rat2b),xeno2b),dros2b),(pyrob,sulfb)),(sc2b,kl\
2b)));

As far as I can see these trees are rooted and balanced. Not only that, they
work as user trees if I append them to the end of the original (non-
bootstrapped) dataset. Does anyone have any ideas as to what is happening here?
Have I put the user trees in the wrong place in the file?

Bernard Khoo   Wellcome/CRC Institute, Cambridge, UK.
               E-mail: bcek1 at mole.cam.ac.uk, @cus.bio.cam.ac.uk,
                       or bkhoo at hgmp.mrc.ac.uk




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