490c026dd40b9305da2e4e915efae9a7 *DESCRIPTION
d5392f991d9681f82874327cb889fc2d *NAMESPACE
2bc87c961e5d54536a2314370bc85741 *NEWS.md
c19d46ae68c251fbc255b724b0e52035 *R/RcppExports.R
71d1f6ac528e16f1dc1ce9cd8b027584 *R/assess_pb_bias_correction.R
2c3a4dd46ec7531fb8ee4d7efdf323b4 *R/assess_reference_loo.R
f5fef52a7ff7eb456d7b9bbd2a503af6 *R/assess_reference_mc.R
3485cd94bc3a50087265c21862d6ecc8 *R/check_known_collections.R
e0bde2f5c25b2c3f5cbcdbcdeb627703 *R/close_matching_samples.R
2846a10f419389884223f094f29f643e *R/count_missing_data.R
590a5fc8c47b3d830d1b3e3557136c28 *R/custom_pi_prior.R
6a9f4739ea907738bb96217f402cc912 *R/data.R
4b2f0728c74ee04b2c318206d9baf821 *R/data_conversion.R
e1cd3f3721157e77cab65024b3d56812 *R/eca-internal-funcs.R
182fb3b6c7da99775de6222e954948c9 *R/import.R
3165cf98335c3b580896339dc1006920 *R/infer_mixture.R
96a8e379bbb329154163f590841aa9f9 *R/modify-scaled-likelihoods-for-known-mixture-fish.R
9e6835cdc3a690c18489a2804eba346d *R/per_locus_means_and_vars.R
477e3e8366215a5691bbacce7aa660ac *R/read_gsi_sim.R
ef50aaf192351c122d2af42c6fd3d637 *R/rubias.R
e7ffd91c9cc9296b3e6aff0192ef8bca *R/self_assign.R
88c2f50572b6db5837bbf711cec53e5c *R/simulate_random_samples.R
f3b3ddc731cc74f78c4ebdb2ab1b581c *R/simulation_pipelines.R
01dad8f00464ad1ce57bc6d97e3e52fa *R/utilities.R
6339ce99390dc2132f3950d7cb66e691 *R/write_gsi_sim_mixture.R
cafd8f1427ec312078e4390e1ab367fb *R/write_gsi_sim_reference.R
28f67be211686100639162a0131b35f8 *README.md
b16bca60e4cd122161b1142fdce6713d *build/vignette.rds
8bf47416ffb662f74dbb6b92e3b7261b *data/alewife.rda
17f275aad1bcc27a1eaeb301eb7ab3be *data/blueback.rda
8cb9f27f5274e0ccf6efd09774dd05ea *data/chinook.rda
531973b2eec741194330557e69aefcf1 *data/chinook_collection_levels.rda
5ed782407c1675cb93f736fb54783458 *data/chinook_mix.rda
8d31a1baaebf4f4bbb35667683e5513c *data/chinook_repunit_levels.rda
063e86d26bf88d26e0e0c627196dc959 *data/perfect_chinook.rda
00d82177c04d539e2f0dd3ed92a07294 *data/perfect_chinook_mix.rda
e6a74d8bfa290843b8c31c00afc19a06 *data/sim_spec_examples.rda
47a35dba0b838678ccfbce28c97507f7 *data/small_chinook_mix.rda
8a90346280a5692d740f40d037f460f3 *data/small_chinook_ref.rda
21fac20b2b31066c5ac1a4e836b03b31 *inst/CITATION
6b8fa2a359c2f474dc4e80a9bafeba55 *inst/doc/rubias-fully-bayesian.R
6baf8d989b54c17c1c9340555ad9f267 *inst/doc/rubias-fully-bayesian.Rmd
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5479ed759008845cce966b566ff468da *inst/scripts/clean-up-gsisim-repunits.awk
4f8cead0be7926993cdff4eccf795a8f *inst/scripts/clean-up-gsisim.awk
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8d2ca4c7b4fa2b572968ae1029bd6d1c *man/assess_reference_loo.Rd
8f6d68a2625737a26b686a3acdbd1ffc *man/assess_reference_mc.Rd
8f3fb91ceca067e0487c19cd88d8ab08 *man/avg_coll2correctRU.Rd
10c6c676ed4786e5c48412a3b87f3952 *man/blueback.Rd
948d995e28cdb3fbf6eef8a37d8b8bc8 *man/bootstrap_rho.Rd
bb59adf82b78dedbe429cf46a0d4cedd *man/check_known_collections.Rd
182a613ffb982cc9a8c8a36ca86650fd *man/check_refmix.Rd
5e80fb3be02bd43335bb66187c81d60b *man/chinook.Rd
1ccc9c60a4a5ed1dd482023e8a388feb *man/chinook_collection_levels.Rd
e0541f062be17703d42f9be26e66e664 *man/chinook_mix.Rd
2cda4d8997abd97bc05ae9c1b78deaf7 *man/chinook_repunit_levels.Rd
114afe57946316d4575daf43e7d0ee22 *man/close_matching_samples.Rd
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cf84296ca2c848187d6bf38dd8edeec7 *man/custom_pi_prior.Rd
8d010e01574357385ea0221ac1c23802 *man/dirch_from_allocations.Rd
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864d087bee7aefe35cc61143ccaa4b19 *man/get_ploidy_from_frame.Rd
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26814e5b2901c6f7aecdd0bd87251b07 *man/gprob_sim_gc_missing.Rd
a613c4375678a37c4951d47053ca2552 *man/gprob_sim_ind.Rd
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f88357f36026328779f22146f8809eca *man/gsi_mcmc_1.Rd
ec3f9c843c2b353e148ec35144038b76 *man/gsi_mcmc_fb.Rd
6f8eb2aba932e6f70302b564c9e7bf47 *man/infer_mixture.Rd
fff3a17827776cee32bfea9d79c151d5 *man/list_diploid_params.Rd
54e97047d761501d320e85a490de5b24 *man/mixture_draw.Rd
0b75a526ec0c11f973af4d9cf5a9a6a9 *man/modify_scaled_likelihoods_for_known_mixture_fish.Rd
791bc8f08b5b3825e59f79a5da529342 *man/per_locus_means_and_vars.Rd
26ec603888dbb192fb6bf2eedb8258bb *man/perfect_chinook.Rd
a7a4a9a98c05f7dfeb931801b012d6c1 *man/perfect_chinook_mix.Rd
19226465eded687222500790db8c5b0c *man/pipe.Rd
1eb129a55318cf7e45a2b1c3cda15c5a *man/rcpp_close_matchers.Rd
3064bf4feceb0766a83276f551836032 *man/rcpp_indiv_specific_logl_means_and_vars.Rd
ecadbf573fb365b69161d28c14545f7f *man/rcpp_per_locus_logls.Rd
1509f25c1030a468faf9d805a16bbfd0 *man/read_gsi_sim.Rd
a15ffff9f25253fb37325eff00adb371 *man/ref_and_mix_pipeline.Rd
be9d4d18a88dfbf5464961daf5db211d *man/reference_allele_counts.Rd
436b8f2e7f4c8c344d2b1fd1efe29438 *man/round2.Rd
000ee59956be0e50c39941a8770209ca *man/rubias.Rd
3356b49447940691c5cd32b199c6f05a *man/samp_from_mat.Rd
bdbb1ae4a0c53ea2fb965fd067d35d66 *man/self_assign.Rd
287d5484d202e4fe1a7320c9ac219e0f *man/sim_spec_examples.Rd
60fb945f0af3499eedfededa04906077 *man/simulate_random_samples.Rd
4cadb756f34b72c1e156184314a2ba1f *man/small_chinook_mix.Rd
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7bf10e4e6a4e93c1b8d7d83ada72a265 *man/tidy_pi_traces.Rd
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06a6405a8cbe6dcf304de04cb9bb5b70 *man/write_gsi_sim_reference.Rd
8465ee3c046dc4b929d81033152f5339 *src/Makevars
1344f2b0991ab305a1a99893493c907d *src/Makevars.win
03575c2e1de1e8c213000984d1242d65 *src/RcppExports.cpp
2f3a07d113cff0d1f78da1502e8affbb *src/macros.h
a65364cb48549c37286c184993b343d4 *src/rcpp_close_matchers.cpp
7c0981c868a479dd40841026fcf5ad0d *src/rcpp_fullBayes_mcmc.cpp
0333c53a68bf56b5e7f560f982262ba1 *src/rcpp_gprobs.cpp
2446faacbc6e8e9b0fc30ef054cf5d1d *src/rcpp_indiv_specific_logl_means_and_vars.cpp
4e677597cb0742252c59dfb9eaaf3f6f *src/rcpp_per_locus_logls.cpp
3f2d770964642df49dae36685a3230b0 *src/rcpp_sampling.cpp
1c4731f335bbb16f0a31b2f95afc5f41 *src/rcpp_sampling.h
7872849b94f0eab40c3725d59fa388c8 *src/rcpp_simulation.cpp
bfd38c6859ee6b559880b32d35f8f2d9 *src/simple_pi_em.cpp
b20c74bab5c66a6baeb0625e4e619a9c *src/simple_pi_mcmc.cpp
0ec4407616f6e0c6946f188b77f1dd0a *src/utilities.cpp
a28c640559a13bd8b8e71fd0bddf7d1a *src/utilities.h
26a4ffd14266608f3abd6f4c0796d06e *tools/boxplot-pofz-gc-sim-1.png
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6baf8d989b54c17c1c9340555ad9f267 *vignettes/rubias-fully-bayesian.Rmd
d945e0954a6fc85e47d2bcc12a6e2591 *vignettes/rubias-overview.Rmd
ca1497513cf39bd338d263422e198130 *vignettes/rubias-underlying-data-structures.Rmd
