AAMatrix-data           AAMatrix-data
GENETIC_CODE_TCAG       GENETIC_CODE_TCAG
aa2selfscore            aa2selfscore
aabin2aastring          aabin2aastring
aastring2aabin          aastring2aabin
aastring2aln            aastring2aln
aastring2dist           aastring2dist
addmask2string          addmask2string
addpop2string           addpop2string
addpos2string           addpos2string
addregion2string        addregion2string
aln2aastring            aln2aastring
aln2dnastring           aln2dnastring
cds2aa                  cds2aa
cds2codonaln            cds2codonaln
cdsstring2codonaln      cdsstring2codonaln
codon2numberAMBIG       codon2numberAMBIG
codon2numberTCAG        codon2numberTCAG
codonmat2pnps           codonmat2pnps
codonmat2xy             codonmat2xy
compareCodons           compareCodons
dnabin2dnastring        dnabin2dnastring
dnastring2aln           dnastring2aln
dnastring2codonmat      dnastring2codonmat
dnastring2dist          dnastring2dist
dnastring2dnabin        dnastring2dnabin
dnastring2kaks          dnastring2kaks
getmask                 getmask
getpos                  getpos
globalDeletion          globalDeletion
globalDeletionAA        globalDeletionAA
granthamMatrix          granthamMatrix
hiv-data                hiv-data
indices2kaks            indices2kaks
iupac-data              iupac-data
iupacMatrix             iupacMatrix
makePostalignedSeqs     makePostalignedSeqs
pal2nal                 pal2nal
popinteger              popinteger
popnames                popnames
rcpp_KaKs               rcpp_KaKs
rcpp_distSTRING         rcpp_distSTRING
rcpp_pairwiseDeletionAA
                        rcpp_pairwiseDeletionAA
rcpp_pairwiseDeletionDNA
                        rcpp_pairwiseDeletionDNA
region                  region
regionused              regionused
string2region           string2region
subString               subString
uptriidx                uptriidx
