Files in tjthurman/BAHZ
Bayesian Analysis of Hybrid Zones
.Rbuildignore
.github/ISSUE_TEMPLATE/bug_report.md
.github/ISSUE_TEMPLATE/feature_request.md
.gitignore
.travis.yml
BAHZ.Rproj
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/bahz-package.r
R/clear_bahz_cache.R
R/cline_summary.R
R/fit_geno_cline.R
R/fit_pheno_cline.R
R/general_cline_eqn.R
R/init_single_chain.R
R/make_prior_config.R
R/plot_cline.R
R/predict_cline.R
R/prep_geno_data.R
R/prep_init_list.R
R/prep_pheno_data.R
R/prep_prior_list.R
R/sim_geno_cline.R
R/sim_pheno_cline.R
R/stanmodels.R
R/utils.R
R/zzz.R
README.Rmd
README.md
bahz_testing.R
configure
configure.win
inst/CITATION
inst/extdata/multinomial/binom_free_none_DEC.stan
inst/extdata/multinomial/binom_free_none_nolim.stan
inst/extdata/multinomial/binom_free_none_nolim_nopriors.stan
inst/extdata/multinomial/multi_free_ind.stan
inst/extdata/multinomial/multi_free_left.stan
inst/extdata/multinomial/multi_free_mirror.stan
inst/extdata/multinomial/multi_free_right.stan
inst/extdata/prior_config_template.yaml
inst/include/stan_meta_header.hpp
inst/stan/bi_ind.stan
inst/stan/bi_left.stan
inst/stan/bi_mirror.stan
inst/stan/bi_none.stan
inst/stan/bi_right.stan
inst/stan/data/data_binom.stan
inst/stan/data/data_multinom.stan
inst/stan/data/data_pheno.stan
inst/stan/functions/cline_functions.stan
inst/stan/generated_quantities/gen_quant_binomial.stan
inst/stan/generated_quantities/gen_quant_multinomial.stan
inst/stan/generated_quantities/gen_quant_pheno_constant.stan
inst/stan/generated_quantities/gen_quant_pheno_not_constant.stan
inst/stan/include/license.stan
inst/stan/model/model_center.stan
inst/stan/model/model_f.stan
inst/stan/model/model_left_tail.stan
inst/stan/model/model_mirror_tail.stan
inst/stan/model/model_ps.stan
inst/stan/model/model_right_tail.stan
inst/stan/model/model_width.stan
inst/stan/multi_ind.stan
inst/stan/multi_left.stan
inst/stan/multi_mirror.stan
inst/stan/multi_none.stan
inst/stan/multi_right.stan
inst/stan/parameters/param_all.stan
inst/stan/parameters/param_f.stan
inst/stan/parameters/param_left_tail.stan
inst/stan/parameters/param_mirror_tail.stan
inst/stan/parameters/param_pheno.stan
inst/stan/parameters/param_pheno_constant.stan
inst/stan/parameters/param_pheno_independent.stan
inst/stan/parameters/param_pheno_pooling.stan
inst/stan/parameters/param_right_tail.stan
inst/stan/pheno_constant.stan
inst/stan/pheno_independent.stan
inst/stan/pheno_pooled.stan
inst/stan/priors/priors_all.stan
inst/stan/priors/priors_f.stan
inst/stan/priors/priors_left_tail.stan
inst/stan/priors/priors_mirror_tail.stan
inst/stan/priors/priors_right_tail.stan
man/assign_stan_dist_int.Rd
man/bahz-packge.Rd
man/check_init_chain.Rd
man/check_prior_specification.Rd
man/check_prior_supported.Rd
man/clear_bahz_cache.Rd
man/cline_summary.Rd
man/correct_fis.Rd
man/extractValue.Rd
man/figures/README-pressure-1.png
man/figures/README-unnamed-chunk-3-1.png
man/figures/README-unnamed-chunk-5-1.png
man/fit_geno_cline.Rd
man/fit_pheno_cline.Rd
man/general_cline_eqn.Rd
man/init_single_chain.Rd
man/internal_cline_eqn.Rd
man/make_prior_config.Rd
man/parse_prior_file.Rd
man/pipe.Rd
man/plot_cline.Rd
man/predict_cline.Rd
man/prep_geno_data.Rd
man/prep_init_list.Rd
man/prep_pheno_data.Rd
man/prep_prior_list.Rd
man/sim_geno_cline.Rd
man/sim_pheno_cline.Rd
pheno_testing.R
src/Makevars
src/Makevars.win
src/init.cpp
tests/testthat.R
tests/testthat/prior_config_test1.yaml
tests/testthat/prior_config_test2.yaml
tests/testthat/prior_config_test3.yaml
tests/testthat/prior_config_test_misspecified_dist.yaml
tests/testthat/prior_config_test_no_initial.yaml
tests/testthat/prior_config_test_unsupported_dist.yaml
tests/testthat/prior_config_wrong_name.yaml
tests/testthat/prior_config_wrong_number.yaml
tests/testthat/prior_config_wrong_order.yaml
tests/testthat/ref_geno_data.Rda
tests/testthat/ref_geno_stanfit.Rda
tests/testthat/ref_init_single_chain_bi.Rda
tests/testthat/ref_init_single_chain_multi.Rda
tests/testthat/ref_parse_prior.Rda
tests/testthat/ref_pheno_data.Rda
tests/testthat/ref_pheno_stanfit.Rda
tests/testthat/ref_pred_cline1.Rda
tests/testthat/ref_pred_cline2.Rda
tests/testthat/ref_pred_cline3.Rda
tests/testthat/ref_prep_geno_data1.Rda
tests/testthat/ref_prep_geno_data2.Rda
tests/testthat/ref_prep_geno_data3.Rda
tests/testthat/ref_prep_init_list_bi.Rda
tests/testthat/ref_prep_init_list_multi.Rda
tests/testthat/ref_prep_pheno_data1.Rda
tests/testthat/ref_prep_prior_list.Rda
tests/testthat/ref_prep_prior_list1.Rda
tests/testthat/ref_prep_prior_list2.Rda
tests/testthat/ref_simulated_geno_clines.Rda
tests/testthat/ref_simulated_pheno_clines.Rda
tests/testthat/ref_summary1.Rda
tests/testthat/ref_summary2.Rda
tests/testthat/ref_summary3.Rda
tests/testthat/ref_summary4.Rda
tests/testthat/test_check_init_chain.R
tests/testthat/test_cline_summary.R
tests/testthat/test_correct_fis.R
tests/testthat/test_extract.R
tests/testthat/test_fit_geno_cline.R
tests/testthat/test_fit_pheno_cline.R
tests/testthat/test_general_cline_eqn.R
tests/testthat/test_init_single_chain.R
tests/testthat/test_make_prior_config.R
tests/testthat/test_parse_prior_file.R
tests/testthat/test_plot_cline.R
tests/testthat/test_predict_cline.R
tests/testthat/test_prep_geno_data.R
tests/testthat/test_prep_init_list.R
tests/testthat/test_prep_pheno_data.R
tests/testthat/test_prep_prior_list.R
tests/testthat/test_prior_checkers.R
tests/testthat/test_sim_geno_cline.R
tests/testthat/test_sim_pheno_cline.R
