f488a8537bef31d4365270d5da6c350f *DESCRIPTION
1b84b21f019b4325a732ca8214f6763a *NAMESPACE
1d78a878379aef8576a19e21dafb85a9 *NEWS.md
72e718eac5645e9e77e9eb62262b6d2a *R/RcppExports.R
198fa55067d27bf4c2b19066ed0714c0 *R/assess_pb_bias_correction.R
08de98e6917b40d38af4db1290688af4 *R/assess_reference_loo.R
ff3f6c413e1ae7c0e2afd51575abe1c1 *R/assess_reference_mc.R
12e9ebdf907437f77915c55dbaeb7915 *R/count_missing_data.R
6a9f4739ea907738bb96217f402cc912 *R/data.R
b4121a5b88c31b176ea71e531e83c09b *R/data_conversion.R
5d4ff55d5587bd40793805e46e729231 *R/eca-internal-funcs.R
3d871836a9ecd103c4e9efebcc36756c *R/import.R
01ba77922ef8f132c643fa7f50e89a87 *R/infer_mixture.R
9e6835cdc3a690c18489a2804eba346d *R/per_locus_means_and_vars.R
477e3e8366215a5691bbacce7aa660ac *R/read_gsi_sim.R
06c8937711fc265beea0d03a5b9764f7 *R/rubias.R
5d553faec58890487f036538db06ca16 *R/self_assign.R
88c2f50572b6db5837bbf711cec53e5c *R/simulate_random_samples.R
928afb362d3e7766ac96939c5611d72a *R/simulation_pipelines.R
6312d605a65b586b7c256cd88fda3b83 *R/utilities.R
6339ce99390dc2132f3950d7cb66e691 *R/write_gsi_sim_mixture.R
52c7d28eb87842034862360d288134fe *R/write_gsi_sim_reference.R
b985e463502fa1833f63d3d610d9d8ec *README.md
b3505c48d2f58c6ce84b738a1f339594 *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
4c3ea3ec637872e873b53e2e9c32e908 *inst/doc/rubias-overview.R
c956137c145f3d4d03eb58074b7fca60 *inst/doc/rubias-overview.Rmd
3c39d532027b1fde2be02e8af0e46648 *inst/doc/rubias-overview.html
7ec7320341b7d5b2128acd4f35b6e4b8 *inst/doc/rubias-underlying-data-structures.R
a338ce4f4abaa95841c1ce7b036b03a3 *inst/doc/rubias-underlying-data-structures.Rmd
b7dd8188753a84b32e7a11e5b126ffd4 *inst/doc/rubias-underlying-data-structures.html
5479ed759008845cce966b566ff468da *inst/scripts/clean-up-gsisim-repunits.awk
4f8cead0be7926993cdff4eccf795a8f *inst/scripts/clean-up-gsisim.awk
8c6339e67317dcf113e2738920294fb3 *man/Hasselman_sim_colls.Rd
f30546a1950706e86c4d08ae2de6aa4e *man/a_freq_list.Rd
2287d61b8f1a12cc0551c2b7a62c95d8 *man/alewife.Rd
bd9c923d714c55c237f2755cb0c8fa0d *man/allelic_list.Rd
b7c220e5d60f69ea80303d9a6de6ae01 *man/assess_pb_bias_correction.Rd
bbfa1258855e847e5dda91e3e84dbfd8 *man/assess_reference_loo.Rd
8f6d68a2625737a26b686a3acdbd1ffc *man/assess_reference_mc.Rd
8803855045c71cc63301ba44b52912d4 *man/avg_coll2correctRU.Rd
10c6c676ed4786e5c48412a3b87f3952 *man/blueback.Rd
fc18755f213d51c4d8dbcdb4b9a0cc64 *man/bootstrap_rho.Rd
9c20164bf705ef6a7ca0169357754820 *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
c1575f8cd578ad33240f6e7c641437d6 *man/count_missing_data.Rd
8d010e01574357385ea0221ac1c23802 *man/dirch_from_allocations.Rd
9d153540ea0418902eee0e516c657d0e *man/dirch_from_counts.Rd
a9ee610311478cfa4f2cd0647566de73 *man/geno_logL.Rd
f7776f243749839056c9ba7ab6745775 *man/geno_logL_ssq.Rd
8419036e8bdab302594188f6fc50e1db *man/gprob_sim_gc.Rd
ce3beb0ad7539b1aec4d14758c013bb4 *man/gprob_sim_gc_missing.Rd
a613c4375678a37c4951d47053ca2552 *man/gprob_sim_ind.Rd
6fc08bcf9125c20bb6c0ed8f8d471bef *man/gsi_em_1.Rd
90764c86c231d882f61d047c3e660645 *man/gsi_mcmc_1.Rd
893a7f2920da6f4e929d63f5e938c9e8 *man/infer_mixture.Rd
ab2358aaacd4c7f8c29528ae27c3e8da *man/list_diploid_params.Rd
54e97047d761501d320e85a490de5b24 *man/mixture_draw.Rd
791bc8f08b5b3825e59f79a5da529342 *man/per_locus_means_and_vars.Rd
26ec603888dbb192fb6bf2eedb8258bb *man/perfect_chinook.Rd
a7a4a9a98c05f7dfeb931801b012d6c1 *man/perfect_chinook_mix.Rd
19226465eded687222500790db8c5b0c *man/pipe.Rd
3064bf4feceb0766a83276f551836032 *man/rcpp_indiv_specific_logl_means_and_vars.Rd
ecadbf573fb365b69161d28c14545f7f *man/rcpp_per_locus_logls.Rd
1509f25c1030a468faf9d805a16bbfd0 *man/read_gsi_sim.Rd
34eb8a92130bb3f8c7980e34e5930839 *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
bc8862906ab1cb15cd001d2afb9a7aee *man/simulate_random_samples.Rd
4cadb756f34b72c1e156184314a2ba1f *man/small_chinook_mix.Rd
f0ffad55da7a1662a9019bacb91e73b2 *man/small_chinook_ref.Rd
6b08bc4f4a7fad51a43dc6d69527307a *man/tcf2long.Rd
017adc6f96d37c0f0a0748b2a60d4ad0 *man/tcf2param_list.Rd
202532597d9cfc5ecdd8abbafbd94fde *man/tidy_mcmc_coll_rep_stuff.Rd
a1ea21891482411e3828eae4a25eab16 *man/tidy_mcmc_pofz.Rd
7bf10e4e6a4e93c1b8d7d83ada72a265 *man/tidy_pi_traces.Rd
e5cc1ba8c8502e35c48f81245a264b07 *man/write_gsi_sim_mixture.Rd
06a6405a8cbe6dcf304de04cb9bb5b70 *man/write_gsi_sim_reference.Rd
9fd466a21b2e6dbaad7fa7345b546856 *src/RcppExports.cpp
a639de0c818f956f5f1a5b876c817d66 *src/macros.h
80c40d8eee2c981026da8e9c98bf5d15 *src/rcpp_gprobs.cpp
2446faacbc6e8e9b0fc30ef054cf5d1d *src/rcpp_indiv_specific_logl_means_and_vars.cpp
d94ad65d45183afb422509d15df11632 *src/rcpp_per_locus_logls.cpp
3f2d770964642df49dae36685a3230b0 *src/rcpp_sampling.cpp
1c4731f335bbb16f0a31b2f95afc5f41 *src/rcpp_sampling.h
9a416f7f99a1e01a56a49e85d82e3088 *src/rcpp_simulation.cpp
9144612820079c5b84c6b9326edde049 *src/simple_pi_em.cpp
1059f23075af5123e99d1deb615eea46 *src/simple_pi_mcmc.cpp
0ec4407616f6e0c6946f188b77f1dd0a *src/utilities.cpp
a28c640559a13bd8b8e71fd0bddf7d1a *src/utilities.h
16a442722c07c0b664e1a270f1444298 *tools/boxplot-pofz-gc-sim-1.png
dcb2a6fea8834fb8f89b9b86c3f94bfd *tools/boxplot-pofz-indiv-sim-1.png
df3bf1ccba5d86284365b8f5de5a544a *tools/plot-6-1.png
7206a2bccc17e87ed2168fccb502d671 *tools/plot-top6-1.png
e8f201475dbb01e675760fc35ea7df38 *tools/plot-top6-n-1.png
59b88679f2660c7270d2c40d611de92b *tools/z-score-density-1.png
c956137c145f3d4d03eb58074b7fca60 *vignettes/rubias-overview.Rmd
a338ce4f4abaa95841c1ce7b036b03a3 *vignettes/rubias-underlying-data-structures.Rmd
