87542ddf7a87ff197f9dc755c0a230a7 *DESCRIPTION
bd9290cfd0901c58ed8165117de347bc *NAMESPACE
6b26cf66fcc4992effdb12452ef54b31 *R/RcppExports.R
5edcf9f28842f9edab8b08dfd67bd0b1 *R/Viterbi.R
249b68fb4bb1510937de68e7675916bd *R/align.R
bb83bbb8dc12d6e095b26bba97820b6e *R/aphid.R
3f5449ad56f13739122d3464e2a7075f *R/backward.R
ea7f7c1f495738ae4bfe346b2edbce43 *R/data.R
c04f3c401a25dc2b29bc9cade17b740b *R/deriveHMM.R
cfc9e1629c89d4d7d2e6b63392013bfe *R/derivePHMM.R
f798b187f4b2b2267278df8715c70d7c *R/forward.R
f07282c2d3481f7a6a1644f0d5665083 *R/generate.R
ee005f1be032f6b80c2ba9729c9cb774 *R/plot.R
fc779a3513ad8bd12da21359bd243729 *R/posterior.R
aa57079b4f0551331fcf27f0228a9111 *R/print.R
0fa7aca56d2553ff339cafdd84f05db0 *R/read.R
aff979659ad2fe60219a6b25440f3185 *R/train.R
bb3afb5fdf7c7aa403c77640db67805b *R/utils.R
540c341c967761a17d9aca2398e814d9 *R/weight.R
f0a70f3b4525832b7dab4f47c6f20690 *R/write.R
ab58e88a16989d4a64314a3a0feea51f *README.md
1e5a4fe257ffb3cf71ecd303ce8c57ca *build/vignette.rds
2cec5e355bd0f72eb17885d6f7c531f9 *data/casino.RData
5591c4ffe2abef1e50d907b8100b7731 *data/globins.RData
6d7df45f3d14ed8fbf40808b19071350 *data/substitution.RData
c06cd48db35a417c57fc7e35bd91c7c6 *inst/CITATION
e6ceb3a03c2c95a5ff51788ee2bee7b2 *inst/doc/aphid-vignette.R
63de53a30f65d5cb197184d614b1af4b *inst/doc/aphid-vignette.Rmd
03ff3bb630b5b539404cdd9fdd2d7645 *inst/doc/aphid-vignette.html
d6a75ade4ec2942a0aa42905848c6549 *man/Viterbi.Rd
ae2fdeb57d246b1a491d9e85144bc0b3 *man/align.Rd
f4bc68263e35b366217a592ea935952a *man/aphid.Rd
de908555c7ac695b521773401be92fa8 *man/backward.Rd
543d8a491be6cf544648f49f02b9ac54 *man/casino.Rd
a69e0ce58c3aa9ddf757c1240b3e4407 *man/deriveHMM.Rd
27f9bc433b7e67c3a7b2b3430638ca20 *man/derivePHMM.Rd
fe8acbaf866d9623edea505243b91758 *man/forward.Rd
51b25fb73d5695bb68d91a1731583d96 *man/generate.Rd
a0f853a52147b90ea9e74c2ac4222dc2 *man/globins.Rd
f9679e0e28d1c109071da90f7f7bbb9a *man/logsum.Rd
29dd0869adb9e55b862080eed0725cfe *man/map.Rd
8a5935b308ffade2c6ec7a9c7741c494 *man/plot.HMM.Rd
7010b4de3ad5bb393238b7ffd9c5e40d *man/plot.PHMM.Rd
d22e97bb78df0fecad613b8b23d20995 *man/posterior.Rd
f63481d41e9a23f95009252922ae3aeb *man/print.Rd
17938ed78b5f0c95a54fdf612fd94458 *man/readPHMM.Rd
a8e41c4dbfacf6f3d3e362473746da31 *man/substitution.Rd
73a379fabee750049901bfba9abe8395 *man/train.Rd
c411797a99fc16b6475c30f20540bd3c *man/unalign.Rd
855258a999bc92bc67dfaa719b144b7f *man/weight.Rd
035a35d7f892035f7d79f9ab13a88199 *man/writePHMM.Rd
52561ed26ae347a8e6fe51082d35e738 *src/Makevars
635ba49a12275e8b49d673b7c558edb6 *src/RcppExports.cpp
8294a2dd91cc58c76c343fee2f6bc37a *src/ViterbiC.cpp
bc9f7ac0061ca90a2d5079a9af659811 *src/init.cpp
52e6f9ddd6cc38d74b9070faf6671cf4 *src/map.cpp
9bd665074f68f73cc182839e88427a9b *src/utils.cpp
3b6e844aed784b2217f9fc8b120a64dd *tests/testthat.R
c7c58079606ef9b1e02c8d2cea8043a6 *tests/testthat/test_HMM.R
be025bda46bc51ab1c8b012cdb658d60 *tests/testthat/test_PHMM.R
63de53a30f65d5cb197184d614b1af4b *vignettes/aphid-vignette.Rmd
4b3c0186cfae06b23191facbb6670d9c *vignettes/aphid.bib
