Files in aphid
Analysis with Profile Hidden Markov Models

MD5

NAMESPACE

DESCRIPTION

R/RcppExports.R R/derivePHMM.R R/write.R R/train.R R/Viterbi.R R/print.R R/align.R R/aphid.R R/generate.R R/read.R R/weight.R R/forward.R R/data.R R/posterior.R R/plot.R R/deriveHMM.R R/backward.R R/utils.R

src/Makevars

src/map.cpp

src/init.cpp

src/RcppExports.cpp

src/ViterbiC.cpp

src/utils.cpp

inst/CITATION

inst/doc/aphid-vignette.html

inst/doc/aphid-vignette.Rmd inst/doc/aphid-vignette.R

build/vignette.rds

tests/testthat.R tests/testthat/test_HMM.R tests/testthat/test_PHMM.R

vignettes/aphid.bib

vignettes/aphid-vignette.Rmd

data/substitution.RData

data/globins.RData

data/casino.RData

man/Viterbi.Rd man/aphid.Rd man/generate.Rd man/readPHMM.Rd man/substitution.Rd man/weight.Rd man/globins.Rd man/deriveHMM.Rd man/map.Rd man/plot.HMM.Rd man/align.Rd man/derivePHMM.Rd man/plot.PHMM.Rd man/forward.Rd man/posterior.Rd man/backward.Rd man/writePHMM.Rd man/train.Rd man/print.Rd man/logsum.Rd man/casino.Rd man/unalign.Rd

aphid documentation built on Jan. 23, 2026, 9:07 a.m.

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