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phylip package question

joe at removethispart.gs.washington.edu joe at removethispart.gs.washington.edu
Sun Oct 20 16:28:16 EST 2002

In article <aos956$40n$1 at mercury.hgmp.mrc.ac.uk>,
Chris Hoffmann  <choffman at lucas.cis.temple.edu> wrote:
>i saw that DNADIST saved the dist matrixes for the data sets that were
>analyzed (that is: they did not have bootstrapped sequences that yielded
>infinite distances) on the output file, up to the moment the program found a
>data set with infinitely distant sequences.
>them i used other bootstrap sets to run DANDIST and append the result to the
>previous file, in the end i had around the number of replicates i wanted
>(haven't had the time yet to see if the resulting consensus tree makes sense
>or not).
>lots of work, but i couldn't think of any other way to go around it.
>so here is my question:

It would probably bias your results toward putting the species
close together.

It is hard to know what to do about all this.

Joe Felsenstein         joe at removethispart.gs.washington.edu
 Department of Genome Sciences, University of Washington,
 Box 357730, Seattle, WA 98195-7730 USA

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