gtp v. 0.15
Gene tree - species tree reconciliation and gene tree parsimony
M.J. Sanderson, April 2006
Section of Evolution and Ecology
UC Davis
Davis, CA 95616 USA
PROGRAM gtp
written by M. J. Sanderson, April 2006
(implementation of duplication score calculations based on algorithm of Zmasek and Eddy, Bioinformatics, 2001)
INSTALLATION:
Download the distribution and follow the installation instructions below.
The source distribution is in the form
gtp.XXX.tar.Z
where XXX is the version number.
Uncompress and untar the source distribution file.
uncompress gtp.XXX.tar.Z
tar xvf gtp.XXX.tar
Compile under UNIX/Linux/MAC OSX, etc.
make clean
make
Test the program with
./gtp -f gtpfile -u -d
(this is a sample data set containing one small species tree and four gene tree sets, the last of which
contains two equally optimal gene trees weighted by 0.5 each)
USAGE
Type ./gtp with no switches to see a brief command line summary.
See the top of the gtp.c file for detailed instructions.