Files in dcgerard/updog
Using Parental Data for Offspring Genotyping

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/RcppExports.R R/bad_updog_ideas.R R/data.R R/diagnostics.R R/est_seq.R R/generics.R R/misc_plot.R R/update_all.R R/updog.R R/updog_bb.R README.Rmd README.md
appveyor.yml
codecov.yml
data/snpdat.rda
docs/.gitignore
docs/LICENSE.html
docs/authors.html
docs/index.html
docs/jquery.sticky-kit.min.js
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/reference/bb_post.html
docs/reference/bb_simple_post.html
docs/reference/bbpost_double.html
docs/reference/bbpost_tot.html
docs/reference/bin_post.html
docs/reference/colSums_cpp.html
docs/reference/dbeta_dd.html
docs/reference/dbeta_deps.html
docs/reference/dbeta_dh.html
docs/reference/dbeta_dl.html
docs/reference/dbeta_dprop.html
docs/reference/dbeta_dr.html
docs/reference/dbeta_dr_ell.html
docs/reference/dbeta_ds.html
docs/reference/dbeta_dtau.html
docs/reference/dbeta_dtau_withxi.html
docs/reference/dbetabinom.html
docs/reference/dbetabinom_cpp.html
docs/reference/dbetabinom_mu_rho.html
docs/reference/dbetabinom_mu_rho_cpp.html
docs/reference/dbetabinom_mu_rho_cpp_double.html
docs/reference/dd_ds.html
docs/reference/deps_dell.html
docs/reference/df_deps.html
docs/reference/dh_dr.html
docs/reference/dh_dtau.html
docs/reference/dhyper_cpp.html
docs/reference/dupdog.html
docs/reference/dxi_dd.html
docs/reference/dxi_df.html
docs/reference/est_seq_error.html
docs/reference/est_seq_post.html
docs/reference/expit.html
docs/reference/get_dimname.html
docs/reference/get_out_prop.html
docs/reference/get_parent_outprop.html
docs/reference/get_prob_geno.html
docs/reference/get_pvec.html
docs/reference/get_q_array.html
docs/reference/get_q_array_cpp.html
docs/reference/get_transition_mat.html
docs/reference/good_bb_obj.html
docs/reference/grad_offspring.html
docs/reference/grad_offspring_mat.html
docs/reference/grad_offspring_mat_original.html
docs/reference/grad_offspring_original.html
docs/reference/grad_offspring_weights.html
docs/reference/grad_offspring_weights_original.html
docs/reference/grad_parent.html
docs/reference/grad_parent_reparam.html
docs/reference/grad_wrapp_all.html
docs/reference/index.html
docs/reference/is.updog.html
docs/reference/logsumexp.html
docs/reference/obj_offspring.html
docs/reference/obj_offspring_reparam.html
docs/reference/obj_offspring_vec.html
docs/reference/obj_offspring_weights.html
docs/reference/obj_offspring_weights_reparam.html
docs/reference/obj_parent.html
docs/reference/obj_parent_reparam.html
docs/reference/obj_wrapp_all.html
docs/reference/out_grad_parent.html
docs/reference/out_grad_wrapp.html
docs/reference/out_obj_wrapp.html
docs/reference/outlier_bb_obj.html
docs/reference/outlier_grad.html
docs/reference/outlier_obj.html
docs/reference/pbias.html
docs/reference/pbias_double.html
docs/reference/plot.updog.html
docs/reference/plot_beta_dist.html
docs/reference/plot_beta_dist_gg.html
docs/reference/plot_geno.html
docs/reference/plot_geno_base.html
docs/reference/plot_problines.html
docs/reference/rbetabinom_mu_rho.html
docs/reference/rupdog.html
docs/reference/screen_oracle.html
docs/reference/snpdat.html
docs/reference/summary.updog.html
docs/reference/up_bb_fix.html
docs/reference/up_bb_obj.html
docs/reference/up_fix.html
docs/reference/up_max_bb.html
docs/reference/up_obj.html
docs/reference/update_good.html
docs/reference/updog-1.png
docs/reference/updog.html
docs/reference/updog_iterate.html
docs/reference/updog_maximize.html
docs/reference/updog_mcmc.html
docs/reference/updog_old.html
docs/reference/updog_update_all.html
docs/reference/updog_vanilla.html
man/bb_post.Rd man/bb_simple_post.Rd man/bbpost_double.Rd man/bbpost_tot.Rd man/bin_post.Rd man/colSums_cpp.Rd man/dbeta_dd.Rd man/dbeta_deps.Rd man/dbeta_dh.Rd man/dbeta_dl.Rd man/dbeta_dprop.Rd man/dbeta_dr.Rd man/dbeta_dr_ell.Rd man/dbeta_ds.Rd man/dbeta_dtau.Rd man/dbeta_dtau_withxi.Rd man/dbetabinom.Rd man/dbetabinom_cpp.Rd man/dbetabinom_mu_rho.Rd man/dbetabinom_mu_rho_cpp.Rd man/dbetabinom_mu_rho_cpp_double.Rd man/dd_ds.Rd man/deps_dell.Rd man/df_deps.Rd man/dh_dr.Rd man/dh_dtau.Rd man/dhyper_cpp.Rd man/dupdog.Rd man/dxi_dd.Rd man/dxi_df.Rd man/est_seq_error.Rd man/est_seq_post.Rd man/expit.Rd man/fn_cov_mle.Rd man/get_cov_mle.Rd man/get_dimname.Rd man/get_out_prop.Rd man/get_parent_outprop.Rd man/get_prob_geno.Rd man/get_pvec.Rd man/get_q_array.Rd man/get_q_array_cpp.Rd man/get_transition_mat.Rd man/good_bb_obj.Rd man/grad_offspring.Rd man/grad_offspring_mat.Rd man/grad_offspring_mat_original.Rd man/grad_offspring_original.Rd man/grad_offspring_weights.Rd man/grad_offspring_weights_original.Rd man/grad_parent.Rd man/grad_parent_reparam.Rd man/grad_wrapp_all.Rd man/is.updog.Rd man/logsumexp.Rd man/obj_offspring.Rd man/obj_offspring_reparam.Rd man/obj_offspring_vec.Rd man/obj_offspring_weights.Rd man/obj_offspring_weights_reparam.Rd man/obj_parent.Rd man/obj_parent_reparam.Rd man/obj_wrapp_all.Rd man/out_grad_parent.Rd man/out_grad_wrapp.Rd man/out_obj_wrapp.Rd man/outlier_bb_obj.Rd man/outlier_grad.Rd man/outlier_obj.Rd man/pbias.Rd man/pbias_double.Rd man/plot.updog.Rd man/plot_beta_dist.Rd man/plot_beta_dist_gg.Rd man/plot_geno.Rd man/plot_geno_base.Rd man/plot_problines.Rd man/rbetabinom_mu_rho.Rd man/rupdog.Rd man/screen_oracle.Rd man/snpdat.Rd man/summary.updog.Rd man/up_bb_fix.Rd man/up_bb_obj.Rd man/up_fix.Rd man/up_max_bb.Rd man/up_obj.Rd man/update_good.Rd man/updog.Rd man/updog_iterate.Rd man/updog_maximize.Rd man/updog_mcmc.Rd man/updog_old.Rd man/updog_update_all.Rd man/updog_vanilla.Rd
src/.gitignore
src/RcppExports.cpp
src/bb_post.cpp
src/em.cpp
src/gradients.cpp
src/objectives.cpp
src/out_step.cpp
src/parent_contributions.cpp
src/prob_functions.cpp
src/updog.h
src/utitility.cpp
tests/testthat.R
tests/testthat/alpha_err_dat.RDS
tests/testthat/bad_dat.RDS
tests/testthat/bad_vals.RDS
tests/testthat/dat.RDS
tests/testthat/err_list.RDS
tests/testthat/err_list2
tests/testthat/example_snp.RDS
tests/testthat/new_updog_result.RDS
tests/testthat/non_llike_increase_dat.RDS
tests/testthat/obj_wrapp_all_input.RDS
tests/testthat/old_updog_result.RDS
tests/testthat/problem_params.RDS
tests/testthat/test_alpha_err.R tests/testthat/test_bb.R tests/testthat/test_diagnostics.R tests/testthat/test_gradients.R tests/testthat/test_hw.R tests/testthat/test_hyper.R tests/testthat/test_obj_functions.R tests/testthat/test_outprop.R tests/testthat/test_parents.R tests/testthat/test_plot.R tests/testthat/test_plot_na.R tests/testthat/test_problem_params.R tests/testthat/test_seq.R tests/testthat/test_seq_od_zero.R tests/testthat/test_update.R tests/testthat/test_update_all.R
tests/testthat/updog_class.RDS
tests/testthat/updog_obj.RDS
tests/testthat/warn_dat.RDS
ubib.bib
dcgerard/updog documentation built on Oct. 8, 2017, 11:58 a.m.