| Program name | Description |
| eclique |
Largest clique program
|
| edollop |
Dollo and polymorphism parsimony algorithm
|
| edolpenny |
Penny algorithm Dollo or polymorphism
|
| efactor |
Multistate to binary recoding program
|
| emix |
Mixed parsimony algorithm
|
| epenny |
Penny algorithm, branch-and-bound
|
| fclique |
Largest clique program
|
| fdollop |
Dollo and polymorphism parsimony algorithm
|
| fdolpenny |
Penny algorithm Dollo or polymorphism
|
| ffactor |
Multistate to binary recoding program
|
| fmix |
Mixed parsimony algorithm
|
| fmove |
Interactive mixed method parsimony
|
| fpars |
Discrete character parsimony
|
| fpenny |
Penny algorithm, branch-and-bound
|