Files in updog
Flexible Genotyping for Polyploids

MD5
DESCRIPTION
README.md
NAMESPACE
inst/NEWS.md
inst/CITATION
inst/doc/simulate_ngs.Rmd inst/doc/parallel_computing.R
inst/doc/simulate_ngs.html
inst/doc/oracle_calculations.html
inst/doc/smells_like_updog.R inst/doc/parallel_computing.Rmd
inst/doc/smells_like_updog.html
inst/doc/smells_like_updog.Rmd inst/doc/oracle_calculations.Rmd inst/doc/simulate_ngs.R inst/doc/oracle_calculations.R
inst/doc/parallel_computing.html
inst/include/updog_RcppExports.h
inst/include/updog.h
vignettes/simulate_ngs.Rmd vignettes/parallel_computing.Rmd vignettes/smells_like_updog.Rmd
vignettes/genobib.bib
vignettes/oracle_calculations.Rmd R/data.R R/ashdog.R R/vem.R R/double_red.R R/updog.R R/RcppExports.R R/pref.R R/rflexdog.R R/plot_mupdog.R R/oracle.R
src/objective.cpp
src/mupdog.h
src/oracle.cpp
src/Makevars.win
src/weighted_em_const.cpp
src/util_funs.cpp
src/em.cpp
src/RcppExports.cpp
src/betabinom.cpp
src/flexdog.cpp
src/Makevars
src/gradients.cpp
src/outlier_fns.cpp
src/pref.cpp
man/compute_all_log_bb.Rd man/grad_for_eps.Rd man/obj_for_mu_sigma2.Rd man/uni_obj.Rd man/oracle_mis_vec_from_joint.Rd man/get_q_array.Rd man/f1_obj.Rd man/ashpen_fun.Rd man/get_bivalent_probs.Rd man/get_conv_inner_weights.Rd man/get_bivalent_probs_dr.Rd man/get_probk_vec.Rd man/update_pp_s1.Rd man/xi_double.Rd man/rgeno.Rd man/grad_for_mu_sigma2_wrapper.Rd man/dxi_dh.Rd man/betabinom.Rd man/pen_bias.Rd man/pivec_from_segmats.Rd man/uni_obj_const.Rd man/flex_update_pivec.Rd man/get_wik_mat.Rd man/obj_for_weighted_lbb.Rd man/pbetabinom_double.Rd man/get_wik_mat_out.Rd man/mupout.Rd man/dbernbinom.Rd man/uni_em.Rd man/post_prob.Rd man/flexdog.Rd man/uni_em_const.Rd man/eta_double.Rd man/grad_for_mu_sigma2.Rd man/is.flexdog.Rd man/get_inner_weights.Rd man/pen_seq_error.Rd man/oracle_mis_vec.Rd man/log_sum_exp_2.Rd man/dbetabinom_alpha_beta_double.Rd man/dxi_df.Rd man/grad_for_weighted_lbb.Rd man/flexdog_obj.Rd man/dlbeta_dc.Rd man/dbetabinom_double.Rd man/plot.mupdog.Rd man/obj_for_alpha.Rd man/rflexdog.Rd man/dpen_dh.Rd man/wem.Rd man/oracle_mis.Rd man/mupdog.Rd man/convolve.Rd man/obj_for_mu_sigma2_wrapper.Rd man/get_hyper_weights.Rd man/flexdog_full.Rd man/dr_pen.Rd man/dpen_deps.Rd man/snpdat.Rd man/rbetabinom_int.Rd man/compute_all_post_prob.Rd man/oracle_cor.Rd man/elbo.Rd man/update_dr.Rd man/dlbeta_dh.Rd man/flexdog_obj_out.Rd man/dlbeta_dtau.Rd man/dlbeta_dxi.Rd man/plot_geno.Rd man/dc_dtau.Rd man/oracle_cor_from_joint.Rd man/eta_fun.Rd man/get_uni_rep.Rd man/compute_all_phifk.Rd man/plot.flexdog.Rd man/obj_for_eps.Rd man/xi_fun.Rd man/initialize_pivec.Rd man/grad_for_weighted_lnorm.Rd man/obj_for_weighted_lnorm.Rd man/obj_for_rho.Rd man/log_sum_exp.Rd man/summary.mupdog.Rd man/dlbeta_deps.Rd man/update_pp_f1.Rd man/df_deps.Rd man/get_dimname.Rd man/qbetabinom_double.Rd man/logit.Rd man/doutdist.Rd man/updog.Rd man/expit.Rd man/uitdewilligen.Rd man/oracle_joint.Rd man/oracle_mis_from_joint.Rd man/pp_brent_obj.Rd man/update_R.Rd man/is.mupdog.Rd man/oracle_plot.Rd
build/vignette.rds
tests/testthat.R tests/testthat/test_rflexdog.R tests/testthat/test_dr.R tests/testthat/test_dbetabinom.R tests/testthat/test_gradients.R tests/testthat/test_pref.R
tests/testthat/testdat.RData
tests/testthat/test_mupdog.R tests/testthat/test_utils.R
tests/testthat/out_err.RData
tests/testthat/test_generics.R tests/testthat/test_oracle.R tests/testthat/test_uni_gem.R tests/testthat/test_f1_genotyping.R tests/testthat/test_objectives.R tests/testthat/test_cvxr.R
tests/testthat/cvx_prob.RDS
tests/testthat/test_flexdog.R
data/uitdewilligen.RData
data/mupout.RData
data/snpdat.RData
updog documentation built on July 28, 2018, 1:04 a.m.