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GARLI

NAME

garli − phylogenetic analysis of molecular sequence data using maximum-likelihood

SYNOPSIS

garli [OPTION] [config filename]

DESCRIPTION

GARLI, Genetic Algorithm for Rapid Likelihood Inference is a program for inferring phylogenetic trees. Using an approach similar to a classical genetic algorithm, it rapidly searches the space of evolutionary trees and model parameters to find the solution maximizing the likelihood score. It implements nucleotide, amino acid and codon-based models of sequence evolution, and runs on all platforms. The latest version adds support for partitioned models and morphology-like datatypes.

OPTIONS

−i, −−interactive

interactive mode (allow and/or expect user feedback)

−b, −−batch

batch mode (do not expect user input) (batch is the default for the version you are running)

−v, −−version

print version information and exit

−h, −−help

print this help and exit

−t

run internal tests (requires dataset and config file)

−V

validate: load config file and data, validate config file, data, starting trees and constraint files, print required memory and selected model, then exit

NOTE: If no config filename is passed on the command line the program will look in the current directory for a file named "garli.conf"

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

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