03aa2b62a768b1308a271a170fe36e8e *DESCRIPTION
79a1371d8adc35da5b01d7697244deaa *LICENSE
9c8099611656f10dc5b8bc37260fd9d2 *NAMESPACE
c09fb540767cad2e1884ae56e5e40ecd *NEWS.md
e17a9a56c7c59cc7ddaf0fb38c207329 *R/LDA.R
32ef3afe89e99981960b496c4471ff05 *R/LDATS.R
7953ce7da865a125be499dc200d0413e *R/LDA_TS.R
fbca31b3d6638c570c698d996ec8461e *R/LDA_TS_plots.R
354cd37c6de60dc99d5ba900399865ea *R/LDA_plots.R
a254de211d8c4f0c7b8e6765b964d2df *R/TS.R
aeb4b8b599ce62c9699446b8e94b46ab *R/TS_on_LDA.R
1ac553c4910ec588c77f9e9d6445d23f *R/TS_plots.R
767dc3b970ea3c3063f21c5a3fb2a25d *R/data.R
1695cd467b91103d57ea27a80c71fcab *R/multinom_TS.R
e2d89b1d75eed86ffc4c58264e814a14 *R/ptMCMC.R
5231165ff9933c521e76dd7c16de2533 *R/simulate.R
4c1db0f91f9da739c1ce172869bc632c *R/utilities.R
989b25b45220e008de636dd447b53917 *README.md
835b19b36f3dcf1a867af7fe216715b9 *build/vignette.rds
164eda2fa38de0bc2159da902330ccd3 *data/jornada.RData
ca4cad9c0b693deb03d38dc3cc933cd8 *data/rodents.RData
50efbf0bdd0ae40fd425bf4c40998c84 *inst/WORDLIST
6afd09fe0ff520a0ee4d3284bc590d4d *inst/doc/LDATS_codebase.R
d7b094ccb906c9c8ffd2e769aa1afe34 *inst/doc/LDATS_codebase.Rmd
1072c9b3b3f042ce78520db38711af1f *inst/doc/LDATS_codebase.html
f67b09b0f5c23e911ac34e3828f877e2 *inst/doc/paper-comparison.R
f29ef795ead13f66b6bc12b073c85b18 *inst/doc/paper-comparison.Rmd
62112855d55aa3ec5a3d8885db1ca153 *inst/doc/paper-comparison.html
84aa8ef802237cd1e47404aa213ab17b *inst/doc/rodents-example.R
aef7977ec8607e5efad814b86579f342 *inst/doc/rodents-example.Rmd
e058175261563d17e4aa1a83d5f2b3a1 *inst/doc/rodents-example.html
6d34189cad80033049540f97db5c6b25 *man/AICc.Rd
4a7f1b0cc616ef87dfb408a3d7712358 *man/LDATS.Rd
96f07e265b666787d572b3af21fd4dfb *man/LDA_TS.Rd
62cdf9d50914d13bc12adfafec9a27f6 *man/LDA_TS_control.Rd
4d1591219623f585223aea0bd04fc303 *man/LDA_msg.Rd
f8fba417f57a1114b2acbf89c4509a30 *man/LDA_set.Rd
0fd62bada5bea265636a67433966e285 *man/LDA_set_control.Rd
9220be663e3f9d72559097c6fceaf7b5 *man/TS.Rd
80678ed1a19f4ea022a5eb7ebeae2e0f *man/TS_control.Rd
4546f3a9ffa291cfa979e8f80cff59cf *man/TS_diagnostics_plot.Rd
68432a1327a6b0dfd05253c98da00dc4 *man/TS_on_LDA.Rd
6951bf5315b4c8629e9d49b45db58470 *man/TS_summary_plot.Rd
e07b020de3e027d8b6ea18c30d8d583d *man/autocorr_plot.Rd
44f7d38a3e9d234b915d1cd959ce9d2f *man/check_LDA_models.Rd
e8591c249224163377c4eaff2eee75f7 *man/check_changepoints.Rd
fa2fcdb57345c845983b2d31b3ea4e40 *man/check_control.Rd
864fcca0ef945a0d56b3f0a4eaa2a1bd *man/check_document_covariate_table.Rd
d3d90f1905bb8a91a9180a567983059d *man/check_document_term_table.Rd
182fb73ef90477ae4718ae2a293182fb *man/check_formula.Rd
76deec53290ecf646a282bf0351567d4 *man/check_formulas.Rd
666f5dd5a5cadeb0fd1c02b365966f26 *man/check_nchangepoints.Rd
0375cd585d85eb2588d6132bacab9eb3 *man/check_seeds.Rd
32503763beef28fac1b6fe05bb0d7291 *man/check_timename.Rd
ec51128d8eb1de2a6496f62d671e888d *man/check_topics.Rd
93d18394be9e8ece3a1c05ee2e6b9caa *man/check_weights.Rd
c7ac4d9cf298ba83ecc6f60d0799d082 *man/count_trips.Rd
00607acfc7b8473eed0af478427da736 *man/diagnose_ptMCMC.Rd
10c923bba7359e4af6ae272f40b99c57 *man/document_weights.Rd
992d18a3025ffc0828660d2fc7cef091 *man/ecdf_plot.Rd
0f388c16ab0bfa6360f5b37e51de7d07 *man/est_changepoints.Rd
0cbcdd6c3f3e4af64c8f656ae4089943 *man/est_regressors.Rd
9c9dd558337f6f85478d9810b6f577d1 *man/expand_TS.Rd
49069dd051072c4cfbe2213e82ce46b4 *man/iftrue.Rd
3bfba00e61bda8ab9579854c37c4acbf *man/jornada.Rd
b9e29984ba15c18871d405a686d7c0b0 *man/logLik.LDA_VEM.Rd
b96a6a26beefae7e0b568b224e6d9eb3 *man/logLik.TS_fit.Rd
16a3b19792040adc032dae262833c037 *man/logLik.multinom_TS_fit.Rd
aac19072205499d7fd3a3ffefcdb9ab6 *man/logsumexp.Rd
fb3173eae20da307454fe73142eb27c1 *man/memoise_fun.Rd
5b50b11e843c7078d92b4f8d0b5ef66b *man/messageq.Rd
3b9fd47e0860e04fd74b46dee8e58155 *man/mirror_vcov.Rd
0dcd8771bc788040e9aed6f4629dd4b3 *man/modalvalue.Rd
fd493feab3240710a22a2caf42d7fae3 *man/multinom_TS.Rd
7b6a4487d4120b2ea95a6e98e6356d4d *man/multinom_TS_chunk.Rd
b27733956ef6aeca675df7bae7e99ba6 *man/normalize.Rd
91c25e878e8f2035654362bc208dd483 *man/package_LDA_TS.Rd
b42e6530dca9192b50f9b42e02e5b6af *man/package_LDA_set.Rd
80d746a2127140d5dec13f13887704fd *man/package_TS.Rd
71b4e9999c2fe54d3292c758c0425bae *man/package_TS_on_LDA.Rd
4a081e243e68e69538d4a59f7f3a8fda *man/package_chunk_fits.Rd
2ea54f69cb8f67cd7d94c520352f7192 *man/plot.LDA_TS.Rd
259782db7d8f05ff9ca3cf635b266d20 *man/plot.LDA_VEM.Rd
5d8e5fb0e7884c28c7a5761f801af964 *man/plot.LDA_set.Rd
7dbb414b3f9bf8f03d7b7e2814c79e0b *man/plot.TS_fit.Rd
e81df59cb4d943ff365582cf4a07101d *man/posterior_plot.Rd
62f466fd97325c64da9d63b7cc2d7cb2 *man/prep_LDA_control.Rd
583f279c4d17b713d8d4f9028d1c2257 *man/prep_TS_data.Rd
66f341f5815d63f9362c30ccecf2df28 *man/prep_chunks.Rd
3c275c2db83588d4d2b8fed95e6770f6 *man/prep_cpts.Rd
2006a439e7c0e801a98ad5852057b974 *man/prep_ids.Rd
e990bb9b1e9f6eca5595fea6f08c1fb7 *man/prep_pbar.Rd
f64d28a590e80365b6361ebc99a8b85b *man/prep_proposal_dist.Rd
6cbeae2fd29cee1079dbe6a422476fda *man/prep_ptMCMC_inputs.Rd
6cfca4dffcd5ba72645b88959265e06a *man/prep_saves.Rd
76fc94e73cf5849aec0bbfc5dd3195b8 *man/prep_temp_sequence.Rd
d60176e0b53c9bf55f0e5e433cff6109 *man/print.LDA_TS.Rd
6cfae79642f392308b0c0844f904018f *man/print.TS_fit.Rd
d0497a6258acb5d2e97abf988c5f4225 *man/print.TS_on_LDA.Rd
77e56f2cc13a665a5716c85b3eb884b8 *man/print_model_run_message.Rd
9814bca282fc3fe91e442fc3cc7dafd2 *man/proposed_step_mods.Rd
3ad06824830f4fbb74f01368bd96443f *man/rho_lines.Rd
8594ac31a49d5dacc1fbe215b3182b15 *man/rodents.Rd
efb4a01c384859da5565f5e1f8d4cae2 *man/select_LDA.Rd
a8907a3f46159f3233a3ffd64f1ce4cb *man/select_TS.Rd
0af1b7eaabb476d5ff7444c873b9e290 *man/set_LDA_TS_plot_cols.Rd
e18337978d379a79807934652c39b356 *man/set_LDA_plot_colors.Rd
4d7d55f68b74c3af9addd32b3a2608f1 *man/set_TS_summary_plot_cols.Rd
80635e513661d9b98381c19db598d6dd *man/set_gamma_colors.Rd
15a27adb27ec5e3081e59433321e0d6d *man/set_rho_hist_colors.Rd
1b8bff63b848927d3f3661fc8f0b171b *man/sim_LDA_TS_data.Rd
e336de9c685f9e1830d668e50206d801 *man/sim_LDA_data.Rd
b499312265eb8070b6de6a7561bd78a3 *man/sim_TS_data.Rd
29b0c261ab05b8042c2152a81f11f3e7 *man/softmax.Rd
9411bbce6042794138adf507dc4a4202 *man/step_chains.Rd
f77a438d61b3e45ca97647e227f51fdd *man/summarize_etas.Rd
713ae5bb9326535540929a2172957e00 *man/summarize_rhos.Rd
6a182fac730e20835ecec377253fb7a7 *man/swap_chains.Rd
3a6800ea24ee79ea161765d48c10978b *man/trace_plot.Rd
4d79c43d1b29c04f982a2ee2ea544cd9 *man/verify_changepoint_locations.Rd
df36f5030661ecc4d03ff7c8c7d4cc07 *tests/figs/check-lda-plot-functions/base-lda-plot-bottom-panel.svg
22c945b052cc41dfc265fa03146c9bcd *tests/figs/check-lda-plot-functions/base-lda-plot-top-panel.svg
5c746f7b1a97d2b5a1a6bd4c0ba2af27 *tests/figs/check-lda-plot-functions/base-lda-plot.svg
4a941d7a75124b3775deb65392818e62 *tests/figs/check-lda-plot-functions/base-lda-set-selected-plot.svg
3205d5e3a74a649884fa368996183646 *tests/figs/check-lda-plot-functions/lda-plot-with-time-x.svg
8b1541943caf4237d2d1c8746a0384a1 *tests/figs/check-lda-ts-plot-functions/base-lda-ts-non-interactive-plot.svg
7490d6bb69dadb53c3e70f0f0b7964e8 *tests/figs/check-ts-plot-functions/base-ts-autocorr-plot.svg
03fe7d91849b1b0090db53bea123b5c2 *tests/figs/check-ts-plot-functions/base-ts-diagnostic-plot.svg
33bc4460de610dc14af15d0a9f03a6dc *tests/figs/check-ts-plot-functions/base-ts-ecdf-plot.svg
de052521cc70fa4d2a09afc9ea6a25a0 *tests/figs/check-ts-plot-functions/base-ts-eta-diagnostic-plot.svg
1d046057c7c437091e75715ca3d02258 *tests/figs/check-ts-plot-functions/base-ts-gamma-plot.svg
b91ba667a62f9094c3f6584663e6378e *tests/figs/check-ts-plot-functions/base-ts-plot.svg
07d37d293b3fb2989c6fe9261daae0e5 *tests/figs/check-ts-plot-functions/base-ts-posterior-plot.svg
e049f613d30bff17cb725ec68e4b343f *tests/figs/check-ts-plot-functions/base-ts-rho-diagnostic-plot.svg
f443aafe06d62e7bbbdf1c4355848c3e *tests/figs/check-ts-plot-functions/base-ts-rho-plot.svg
b91ba667a62f9094c3f6584663e6378e *tests/figs/check-ts-plot-functions/base-ts-summary-plot.svg
67cb10761fda1878169bb1d6ea13ca1c *tests/figs/check-ts-plot-functions/base-ts-trace-plot.svg
2712cb8c2072645964a1d36ff801b2cb *tests/figs/check-ts-plot-functions/rho-line-plot.svg
8ef0157e4c826da8c28a91b1ea420b30 *tests/figs/deps.txt
08a317bbcadc8cf3df4e7d0a02032c4d *tests/testthat.R
8073b54e66d872d50cfee98bebdedf01 *tests/testthat/test-01-data.R
4ae46913a8ca2dd5482784d6b334e3f4 *tests/testthat/test-02-lda.R
8400a436f13d8e6ff8ca0f4b8970862e *tests/testthat/test-03-lda_plot.R
6864b65ad842c0dd7d580715a98de4a0 *tests/testthat/test-04-LDA_TS.R
32f2d29aaa0715b658bea6d98511bfc2 *tests/testthat/test-05-LDA_TS_plots.R
4027e4e8f78c75c41e05a3758cd69c67 *tests/testthat/test-06-multinom_TS.R
57072853cf9e95a139cf21c4bc4bc18d *tests/testthat/test-07-ptMCMC.R
aad94bac3fd384bb161d20129cdba868 *tests/testthat/test-08-simulate.R
28354a1c6df9b1d462067ec6c9d41b2d *tests/testthat/test-09-TS.R
b56f93bd9eff79f0f0dbceb2b4d2d0e2 *tests/testthat/test-10-TS_on_LDA.R
bef7befc03474304cc9e44db3d57233f *tests/testthat/test-11-TS_plots.R
9f63c11ee7f03aac4e314aa0321e1b76 *tests/testthat/test-12-utilities.R
d7b094ccb906c9c8ffd2e769aa1afe34 *vignettes/LDATS_codebase.Rmd
f76493bb13a5d6b3b59954dae23f26ba *vignettes/output/lda_distances.png
52f9e89b46b04e5b058f91d7200b76f0 *vignettes/output/ldats_paper_cpt_plot.png
a915dcc9a5d6e3bf296af1a4e2e71ef3 *vignettes/output/paper_paper_cpt_plot.png
711f82ae33aa99df995ccbd9fafc976a *vignettes/output/plot_LDATS_LDA-1.png
616838199ead2741889358ae4fe933a0 *vignettes/output/plot_LDATS_lda_and_paper_cpt2-1.png
b6f27c54dacbb00f6b4d78ebfad53391 *vignettes/output/plot_ldats_LDA_and_LDATS_cpt-1.png
87449092ef938acc9b528ca103fbb2ff *vignettes/output/plot_paper_LDA-1.png
0320cdbbdc6c2a2fbf500d3dcc7adff7 *vignettes/output/plot_paper_LDA_and_LDATS_cpts-1.png
f1848d0214f005e0ee238ed35fe46731 *vignettes/output/plot_paper_LDA_and_LDATS_cpts2-1.png
f29ef795ead13f66b6bc12b073c85b18 *vignettes/paper-comparison.Rmd
7cd9c10436e83db191656f66feb1bfef *vignettes/rodents-example-files/changepoint_models.Rds
515e31744a9a8a50295e5f13917fec27 *vignettes/rodents-example-files/lda_model_set.Rds
c57c5d4e3c5a47b45187d766ed98fb3b *vignettes/rodents-example-files/lda_ts_results.Rds
aef7977ec8607e5efad814b86579f342 *vignettes/rodents-example.Rmd
