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protein parsimony and significance

aroger at ac.dal.ca aroger at ac.dal.ca
Mon Mar 13 17:30:53 EST 1995


I wonder if anyone knows whether any of the phylogeny packages
available (or just a single program) can allow one to test whether
the most parsimonious tree is significantly better than alternative
topologies statistically for protein sequence data using a method
which does NOT employ the stepmatrix in PROTPARS to calculate the
number of steps for the given tree.  In essence I wish to do 
protein parsimony without any stepmatrix and decide between the
best tree and some alternative trees.  I'm relatively poor at
math so I haven't been able to understand the methods described by
Kishino and Hasegawa, (1989), 29:170-179 J. Mol. Evol. and figure
out how they apply to protein sequence data.

Any simple answers will be appreciated!

Andrew Roger
Dept. of Biochemistry
Halifax, N.S.
B3H 4H7
aroger at ac.dal.ca

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