Arlin Stoltzfus > Bio-NEXUS > history.pl

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NAME ^

history.pl

SYNOPSIS ^

history.pl [options] <input_file>

  Options:
    --help -h       brief help message
    --man           full documentation
    --debug         output running info
    -n <run-num>           the number of converging initial runs
    -l <running-level>           running level
       0          new run
       1          old run with new number of generations
       2          just retrieve data from existing files
    -b <burin-in> the number of burnin generations
    -m <monitor>  the number of monitoring generations
    -v            print version information and quit

Description ^

 create ancestral intron states based on an alignment and tree
 in a nexus file. The BUGS program will run many times with small
 number of generations to find those can converge (to global optimum)
 and then run one with a large number of generations (convergence)
 the ancestral states will be computed from the average value of 
 those generations and write back to file in history block

REQUIRES ^

BUGS must be installed for running this program.

VERSION ^

$Revision: 1.8 $

AUTHOR ^

Chengzhi Liang <liangc@umbi.umd.edu>

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