API for aphid
Analysis with Profile Hidden Markov Models

Global functions
Viterbi Man page Source code
Viterbi.HMM Man page Source code
Viterbi.PHMM Man page Source code
Viterbi.default Man page Source code
ViterbiD Source code
ViterbiH Source code
ViterbiP Source code
ViterbiPP Source code
acount Source code
align Man page Source code
align.AAbin Man page Source code
align.DNAbin Man page Source code
align.default Man page Source code
align.list Man page Source code
alphadetect Source code
aphid Man page
aphid-package Man page
arc Source code
atab Source code
backward Man page Source code
backward.HMM Man page Source code
backward.PHMM Man page Source code
backwardH Source code
backwardP Source code
casino Man page
chord Source code
decimal Source code
deriveHMM Man page Source code
derivePHMM Man page Source code
derivePHMM.AAbin Man page Source code
derivePHMM.DNAbin Man page Source code
derivePHMM.default Man page Source code
derivePHMM.list Man page Source code
diamond Source code
digest Source code
disambiguateAA Source code
disambiguateDNA Source code
ecount Source code
ellipse Source code
encodeAA Source code
encodeCH Source code
encodeDNA Source code
forward Man page Source code
forward.HMM Man page Source code
forward.PHMM Man page Source code
forwardH Source code
forwardP Source code
fragC Source code
fragR Source code
generate Man page Source code
generate.HMM Man page Source code
generate.PHMM Man page Source code
globins Man page
logdetect Source code
logsum Man page Source code
map Man page Source code Source code
nsert Source code
nsertlengths Source code
plot.HMM Man page Source code
plot.PHMM Man page Source code
posterior Man page Source code
posterior.HMM Man page Source code
posterior.PHMM Man page Source code
print Man page
print.DPA Man page Source code
print.HMM Man page Source code
print.PHMM Man page Source code
probAA Source code
probDNA Source code
readPHMM Man page Source code
sAA Source code
sDNA Source code
streak Source code
substitution Man page
tabulateAA Source code
tabulateCH Source code
tabulateDNA Source code
train Man page Source code
train.HMM Man page Source code
train.PHMM Man page Source code
trim Source code
unalign Man page Source code
weight Man page Source code
weight.AAbin Man page Source code
weight.DNAbin Man page Source code
weight.default Man page Source code
weight.dendrogram Man page Source code
weight.list Man page Source code
whichmax Source code
writePHMM Man page Source code
aphid documentation built on July 7, 2017, 5:01 p.m.