All functions

AAMatrix

AAMatrix-data

codon2number()

GENETIC_CODE_TCAG

aabin2aastring()

aabin2aastring

aastring2aabin()

aastring2aabin

aastring2aln()

aastring2aln

aastring2dist()

aastring2dist

addmask2string()

addmask2string

addpop2string()

addpop2string

addpos2string()

addpos2string

addregion2string()

addregion2string

aln2aastring()

aln2aastring

aln2dnastring()

aln2dnastring

cds2aa()

cds2aa

cds2codonaln()

cds2codonaln

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

granthamMatrix()

granthamMatrix

hiv

hiv-data

iupac

iupac-data

iupacMatrix()

iupacMatrix

makePostalignedSeqs()

makePostalignedSeqs

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