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The *likelihood* program is used to compute the likelihood of a model
of evolution (*i.e.*,
tree + parameterised substitution model) given a set of studied sequences.
To use *likelihood*, one has to provide a phylogeny for the taxa under
investigation (*i.e.*,
topology and branch lengths) and a substitution model for
nucleotide evolution with user-defined parameters.
To use *likelihood*, type at the command-line:

**likelihood likelihood-control-file**

where *likelihood-control-file* is a valid control file for
the *likelihood* program.
For verification purposes *likelihood* outputs the phylogenetic tree used
on the screen before the likelihood value. Unlike most other
*PHASE*
programs, *likelihood* does not send any results to a file.

Gowri-Shankar Vivek
2003-04-24