be291f172f7eefbda2d6c2a1563c619d *DESCRIPTION
4244bc7be468a5117ac2018ef035abf1 *NAMESPACE
f50b8ed5be66283bd64b5d363422141e *R/LaMa-package.R
f9c17e98ed9436055d4a440671456bc6 *R/RcppExports.R
09ba9f3ca8295f2a29b2ad9fca84bb6c *R/data.R
e5d75f8b63806753a8cf535fb4af8f88 *R/decoding_functions.R
4a2f8c04ecd0070f0beba744d356217f *R/distribution_functions.R
c396d4d39f9df3d181f38f6f51476c29 *R/forward_algorithms.R
5cb8227d87c0944b0f129b2bb9169683 *R/helper_functions.R
60e55cf7fdded3e6cab0221ee9d35d07 *R/hsmm_functions_old.R
27a6e8e48505d41254f28bb6e8c17e9f *R/model_matrix_functions.R
903745a82b10defff48dacdeaee0544c *R/qreml_functions.R
3302496ec7c8bab5b6bae6de7fe8ab1b *R/residual_functions.R
ec5772b4b954cce198c551e8d9acaa32 *R/sdreportMC.R
5c83a8ea7f192349cec44c9bab244b3e *R/stationary_functions.R
4b981b77e90753f11b00b2b1cfe2088f *R/tpm_functions.R
d25b3f94760ad238e387699f2bfb62d7 *README.md
8fe0b90bae060591be08592933ceb391 *build/vignette.rds
b3a32e052358a1912414f188a8622449 *data/nessi.rda
4be22583bbf85790810a7966558bdaad *data/trex.rda
de6545aa2017e091e81b26b6c32e3b2b *inst/doc/Continuous_time_HMMs.R
bd95ea1704e73152c54276cdca929516 *inst/doc/Continuous_time_HMMs.Rmd
eca6151236f99db80f9eb9877a7ffcf6 *inst/doc/Continuous_time_HMMs.html
47f9c5fbb85ec9fabe622b364ed81608 *inst/doc/HSMMs.R
93f8d20b8840af993fa6d05cdd5775bb *inst/doc/HSMMs.Rmd
9f078b7dbab8e2efc0637ee4c566df6b *inst/doc/HSMMs.html
6195e8809ac242951df2ebad9dbffa0f *inst/doc/Inhomogeneous_HMMs.R
ff2e6f9a4f4d86c910c0ec8ebf13a2d4 *inst/doc/Inhomogeneous_HMMs.Rmd
ce474578d17a63149494dc19406aa2df *inst/doc/Inhomogeneous_HMMs.html
51d31e3666a23e1d460bb6c2dd354008 *inst/doc/Intro_to_LaMa.R
c413704ef196922ddae8ee5dc496f306 *inst/doc/Intro_to_LaMa.Rmd
db76a3c356d9076d245476edb573e3c0 *inst/doc/Intro_to_LaMa.html
b22a5b79e2f80f127b784b3b4dfa5a2d *inst/doc/LaMa_and_RTMB.R
0595aeb49b5f22b0746ac027bdc5573e *inst/doc/LaMa_and_RTMB.Rmd
205276f2919bb2b5b27a572b7d8ace2c *inst/doc/LaMa_and_RTMB.html
652df7e21d03b34aca6e7a4293bac130 *inst/doc/Longitudinal_data.R
d7e10ef8005897774bc880ae3e156000 *inst/doc/Longitudinal_data.Rmd
306603f6b7f0fddea16ce389da6a23f5 *inst/doc/Longitudinal_data.html
9d153ff232a12eff504173879ded9fc1 *inst/doc/MMMPPs.R
05f60bf97295c8c0925e607dc76cb74f *inst/doc/MMMPPs.Rmd
a84e5b80a387443668c25b0e4fbaad8b *inst/doc/MMMPPs.html
4d6d2b0b9910cbfd39141eb834190439 *inst/doc/Penalised_splines.R
aa6cbec62b9a80833e607ea3eba5bb1e *inst/doc/Penalised_splines.Rmd
212b86e788ccd8a0345c693d6cfed136 *inst/doc/Penalised_splines.html
79b35fb40c659bb71ca7866b6548d191 *inst/doc/Periodic_HMMs.R
059653545063973f492d989f72da9294 *inst/doc/Periodic_HMMs.Rmd
0ffe975aab257ea0941374fd0f3d7f9d *inst/doc/Periodic_HMMs.html
d78e18aac302b0085094ebc6cfa4fae7 *inst/doc/State_space_models.R
66e29b02ae01db096d036e81816c50fc *inst/doc/State_space_models.Rmd
3db2f16a12bb814f684698b8b99a7090 *inst/doc/State_space_models.html
2d619066ada78b0018aec125d1a4ed32 *man/LaMa-package.Rd
55edcec1bf74343c88049fc186de5b21 *man/calc_trackInd.Rd
a84383bff3d04a4fa0a71b67cc5cee5c *man/cosinor.Rd
07b64c97fc8e0b53cd752354de74f687 *man/ddwell.Rd
df5dec16205d95364c8d8cf5f6d1fae0 *man/dgmrf2.Rd
e6957273a8ec3b02889471087640c88a *man/dirichlet.Rd
ccc0407a5ca5884a47bedc94ba479e50 *man/figures/Logo_LaMa.png
ebc47463c6886102929df74235171d4d *man/figures/Logo_LaMa_old.png
9b286fc35f278ab05193a172e3913c9d *man/figures/Logo_LaMa_surf.png
c13fc9df031243f190276dff2b5ae86c *man/figures/README-data-1.png
bd5dd7bb4670966bfe37e50d9aaee5f2 *man/figures/README-visualization-1.png
c8fa9cbd7b6cc6710c4644517a310dbc *man/forward.Rd
e441a64e07233a611ecf27f73f8dc0bb *man/forward_g.Rd
1337e14bbcf82e47cefe71f83c14221e *man/forward_hsmm.Rd
40b195d7bf314a8357d1f47c7b67272f *man/forward_ihsmm.Rd
a92356bc4a7ba4143b63d5dcefc96e76 *man/forward_p.Rd
21f3f03c3c267d38a71a67e0fea3717f *man/forward_phsmm.Rd
7b19e817823c9d0cd5ea008235e73d0f *man/forward_s.Rd
6cccfb9baba6419b3b726026afce04d5 *man/forward_sp.Rd
8fe1d6d64e4b2d76d37c2577bf7c6748 *man/gamma2.Rd
c96c9e83adec52c351e759c09a9b07c3 *man/gdeterminant.Rd
3f167da46e976949c0f4be38f7d7417c *man/generator.Rd
067865660e10f08ed8da3cadf3e0d870 *man/grapes-sp-grapes.Rd
26593ed6a0ea6c0d9f126faac112731a *man/logLik.qremlModel.Rd
817bf1cf2c22763fefe8d4f5dea12e4e *man/make_matrices.Rd
48c744ab73f756c8d39980e007c65616 *man/make_matrices_dens.Rd
9babba700342c2b7f533a93276d9f2a9 *man/make_matrices_old.Rd
424e78f31c578e753a78b9c4f87f2a05 *man/minmax.Rd
6cfb407e4445dac5ce51e1388ba4a724 *man/minmax0_smooth.Rd
36c93abb42398aa8cf98681c0f66c089 *man/nessi.Rd
3411e4443f1595af3e93afd06646732e *man/penalty.Rd
6a617202d7e197ff95bb1184e4ab0eef *man/penalty2.Rd
84a7fbe71d9bdb1c43a42afb53f54b61 *man/penalty_uni.Rd
80210b314c9467bd3c9f4e651b6d1b24 *man/plot.LaMaResiduals.Rd
1b990053baf0a748a921c573bcf6f117 *man/pred_matrix.Rd
caa7b9b89228a074a9b238c767522d87 *man/predict.LaMa_matrices.Rd
03124026c39473f7e7a773b8b1da4ad1 *man/process_hid_formulas.Rd
614cf7bdea248996859c5e14a55d0f2e *man/pseudo_res.Rd
c60b0d0c3ce4ad463eed22b1968e0c5e *man/pseudo_res_discrete.Rd
1f469dc86b0cb73d1340b0035196cb00 *man/qreml.Rd
c1ad246ef1a0614960e9e8202d63a970 *man/qreml_old.Rd
6446a2b00bc94d342ffd6fa6d739c9ce *man/sdreportMC.Rd
d2c5a643e14a63c94951cf3eb7bfeb3e *man/sdreport_outer.Rd
0fbe353dfd70aeed3e860465432bdbf6 *man/skewnorm.Rd
f4e742a6164f12dba5daef39df12bb40 *man/smooth_dens_construct.Rd
e0346c389cd26d3523fe09c98e430704 *man/stateprobs.Rd
915d42c79263925744f5820be64b51d3 *man/stateprobs_g.Rd
cdd3cf0057bfb3650a514fd7ea8edb2b *man/stateprobs_p.Rd
12b563b68ee8dd367b6a6fded536a0ff *man/stationary.Rd
e8ede6e15ed233d997bef00b95d9cd7f *man/stationary_cont.Rd
040316f7c46e975939767b68f46bdf22 *man/stationary_p.Rd
f4bcce8e126723f5c1dba1280690aae6 *man/stationary_p_sparse.Rd
06ebf7efa25b7d90fba9d8b4db726f0b *man/stationary_sparse.Rd
2e512e845db40c9ac29637aac1d4dc55 *man/summary.qremlModel.Rd
e8ff7bdfe92f19ad055e7e1abe2be412 *man/tpm.Rd
83706e85784cd29c6da8f4d4495b6271 *man/tpm_cont.Rd
03427cb44ef05f2a357256c5cc736f34 *man/tpm_emb.Rd
3e6c8038cc412a928041e603b822a104 *man/tpm_emb_g.Rd
22d3885d9e98301118e98cdff841c85d *man/tpm_g.Rd
f7be5cb2436e0b037da50c6279e590bb *man/tpm_g2.Rd
f52fade71693bbe89832a53a929c1043 *man/tpm_hsmm.Rd
6bd45378deb544a45cfb238007c02eb4 *man/tpm_hsmm2.Rd
2d1fbd2f88ac4278c043482e9152cceb *man/tpm_ihsmm.Rd
d94d3ad6b2d63295a84352e2b9580f23 *man/tpm_p.Rd
35c37f94f1d84e62942b062b0a22d0eb *man/tpm_phsmm.Rd
56258480e418462081e39198d7245270 *man/tpm_phsmm2.Rd
ca47df416cf6374e634f6b2d6e64a6f1 *man/tpm_thinned.Rd
6b155ab2d91e3695f0bc3c001f3c0e3a *man/trex.Rd
61142df40fa9b45c0fc5ab769c7cb25e *man/trigBasisExp.Rd
814271d6cf360c1dee028f74bccd2bfb *man/viterbi.Rd
e99b2a1c9e4454e2a3311120c1a3dd43 *man/viterbi_g.Rd
cd1afa5e782dce84c177d74cbe864a20 *man/viterbi_p.Rd
ea2f2925916127c53a7b3eb25ca16172 *man/vm.Rd
246d6e5171d84d3e6c1b06f7855018bd *man/wrpcauchy.Rd
7dbde24bebdf0e876d38a76edfa2d6c7 *man/zero_inflate.Rd
20fcd42c85fa159603ed6a76614ac9d5 *src/Makevars
4a54f56b4096f7d68c4a0047c00834f0 *src/Makevars.win
bdac8c7156f4158834b621ae107a6c56 *src/RcppExports.cpp
cb33ab500036e5eb975ce43e7fe213cb *src/forward_algorithms.cpp
18e24bc1b06eed8930950efac9108a8c *src/my_functions.h
9320b1de6fa8f905766f52bc41cbebcb *src/rep_times.cpp
345afc6747701ac6a8f808869ff67b5f *src/tpm_functions.cpp
5e846e372c52de16260dfec89c630612 *tests/testthat.R
bf36ed6d384905e30e6dc6e07798dace *tests/testthat/test-tpm.R
bd95ea1704e73152c54276cdca929516 *vignettes/Continuous_time_HMMs.Rmd
93f8d20b8840af993fa6d05cdd5775bb *vignettes/HSMMs.Rmd
aab18a340f03b139c9cc85c7d3b95947 *vignettes/HSMMs_cache/html/__packages
c4675bc65fdecd91f3398c29fcbbac8d *vignettes/HSMMs_cache/html/model_muskox_db5ee275b887b10204620537cc278451.RData
271494fadf2fcf1d672fd6a70083413c *vignettes/HSMMs_cache/html/model_muskox_db5ee275b887b10204620537cc278451.rdb
62ed79750df6122cfd0b7f3c7b877e75 *vignettes/HSMMs_cache/html/model_muskox_db5ee275b887b10204620537cc278451.rdx
ff2e6f9a4f4d86c910c0ec8ebf13a2d4 *vignettes/Inhomogeneous_HMMs.Rmd
1ef5f5f65c0d4b387df33a7178df095f *vignettes/Inhomogeneous_HMMs_cache/html/__packages
1833de345f91e7a6ccdfe1c5de9f9b2c *vignettes/Inhomogeneous_HMMs_cache/html/model2_587e60caf9124ca4d36f78515cde9820.RData
8688ce354efb7908a822e32754961ba4 *vignettes/Inhomogeneous_HMMs_cache/html/model2_587e60caf9124ca4d36f78515cde9820.rdb
aad78c188c026a92be9b694b058b9871 *vignettes/Inhomogeneous_HMMs_cache/html/model2_587e60caf9124ca4d36f78515cde9820.rdx
2c3bf8c4982765f9456877df5640f464 *vignettes/Inhomogeneous_HMMs_cache/latex/__packages
b245ae1ebd7513c9182312fc23dc9c14 *vignettes/Inhomogeneous_HMMs_cache/latex/model2_13e5c7e6275631c672a899ac9d0bd4b0.RData
8ebd9f790d08cbcf455b5a91bb02e1f8 *vignettes/Inhomogeneous_HMMs_cache/latex/model2_13e5c7e6275631c672a899ac9d0bd4b0.rdb
4f0525abc08b4382aeb7314aac3e8487 *vignettes/Inhomogeneous_HMMs_cache/latex/model2_13e5c7e6275631c672a899ac9d0bd4b0.rdx
c413704ef196922ddae8ee5dc496f306 *vignettes/Intro_to_LaMa.Rmd
0595aeb49b5f22b0746ac027bdc5573e *vignettes/LaMa_and_RTMB.Rmd
1ef5f5f65c0d4b387df33a7178df095f *vignettes/LaMa_and_RTMB_cache/html/__packages
d24a42fc9e0888cba708e256f9a95a5f *vignettes/LaMa_and_RTMB_cache/html/refit_7ab27385474c3aeae5a33617445aee17.RData
1168446a7ffca30b2522c57ac43f5224 *vignettes/LaMa_and_RTMB_cache/html/refit_7ab27385474c3aeae5a33617445aee17.rdb
98a5473081f89e090c4fd14510e919fd *vignettes/LaMa_and_RTMB_cache/html/refit_7ab27385474c3aeae5a33617445aee17.rdx
d7e10ef8005897774bc880ae3e156000 *vignettes/Longitudinal_data.Rmd
ccaf60cc1b5f4ca31e2151d449dcf760 *vignettes/Longitudinal_data_cache/html/__packages
3f61a2481d79de5088dd8145d61a4b10 *vignettes/Longitudinal_data_cache/html/model_pool_381c8978531f280149019df595b45f34.RData
878044a5cd9e4d0029d92a3c42ff7deb *vignettes/Longitudinal_data_cache/html/model_pool_381c8978531f280149019df595b45f34.rdb
4cfa721d60a7797d20016ea5787d962b *vignettes/Longitudinal_data_cache/html/model_pool_381c8978531f280149019df595b45f34.rdx
05f60bf97295c8c0925e607dc76cb74f *vignettes/MMMPPs.Rmd
aa6cbec62b9a80833e607ea3eba5bb1e *vignettes/Penalised_splines.Rmd
059653545063973f492d989f72da9294 *vignettes/Periodic_HMMs.Rmd
66e29b02ae01db096d036e81816c50fc *vignettes/State_space_models.Rmd
049ce4dd197e99643919fa38d9b46c63 *vignettes/State_space_models_cache/html/__packages
0441c4ff28ad181d3d78489ae828d808 *vignettes/State_space_models_cache/html/model_39a632569c8d52d92ef4aa54d3616054.RData
2330b31aeca997ad289d4b6b63cecb18 *vignettes/State_space_models_cache/html/model_39a632569c8d52d92ef4aa54d3616054.rdb
f835407727fb8c8331ab423a2553fa76 *vignettes/State_space_models_cache/html/model_39a632569c8d52d92ef4aa54d3616054.rdx
cdf00232cc0bd4fae6f3fd03b6dd33fb *vignettes/man/figures/README-data-1.png
3a87e22a56ac54c9d775bbff09bd415d *vignettes/man/figures/README-visualization-1.png
cdf00232cc0bd4fae6f3fd03b6dd33fb *vignettes/man/figures/vignettes-data-1.png
3a87e22a56ac54c9d775bbff09bd415d *vignettes/man/figures/vignettes-visualization-1.png
f1b2f8cbe78a81f1eadd63c3534b17ad *vignettes/man/obj4.RData
353340fe529045cb530f9d167adc2aaa *vignettes/refs.bib
