Program name	Description
distmat	Create a distance matrix from a multiple sequence alignment
ednacomp	DNA compatibility algorithm
ednadist	Nucleic acid sequence Distance Matrix program
ednainvar	Nucleic acid sequence Invariants method
ednaml	Phylogenies from nucleic acid Maximum Likelihood
ednamlk	Phylogenies from nucleic acid Maximum Likelihood with clock
ednapars	DNA parsimony algorithm
ednapenny	Penny algorithm for DNA
eprotdist	Protein distance algorithm
eprotpars	Protein parsimony algorithm
erestml	Restriction site Maximum Likelihood method
eseqboot	Bootstrapped sequences algorithm
fdiscboot	Bootstrapped discrete sites algorithm
fdnacomp	DNA compatibility algorithm
fdnadist	Nucleic acid sequence Distance Matrix program
fdnainvar	Nucleic acid sequence Invariants method
fdnaml	Estimates nucleotide phylogeny by maximum likelihood
fdnamlk	Estimates nucleotide phylogeny by maximum likelihood
fdnamove	Interactive DNA parsimony
fdnapars	DNA parsimony algorithm
fdnapenny	Penny algorithm for DNA
fdolmove	Interactive Dollo or Polymorphism Parsimony
ffreqboot	Bootstrapped genetic frequencies algorithm
fproml	Protein phylogeny by maximum likelihood
fpromlk	Protein phylogeny by maximum likelihood
fprotdist	Protein distance algorithm
fprotpars	Protein parsimony algorithm
frestboot	Bootstrapped restriction sites algorithm
frestdist	Distance matrix from restriction sites or fragments
frestml	Restriction site maximum Likelihood method
fseqboot	Bootstrapped sequences algorithm
fseqbootall	Bootstrapped sequences algorithm