Files in andreaskapou/BPRMeth-devel

Model higher-order methylation profiles

R/BPRMeth_package.R R/RcppExports.R R/basis_functions.R R/betareg.R R/betareg_cluster_wrap.R R/betareg_optimize.R R/blr.R R/blr_cluster.R R/bpr.R R/bpr_bayes.R R/bpr_bayes_predict_wrap.R R/bpr_cluster_wrap.R R/bpr_diff_classify_wrap.R R/bpr_diff_eval_predict_wrap.R R/bpr_diff_predict_wrap.R R/bpr_diff_test_data_wrap.R R/bpr_diff_test_wrap.R R/bpr_optimize.R R/bpr_predict_wrap.R R/classification_model_diff_gex.R R/create_methyl_region.R R/create_prom_region.R R/data.R R/design_matrix.R R/evaluate_functions.R R/plotting_functions.R R/pool_bs_seq_rep.R R/preprocess_bs_seq.R R/preprocess_final_HTS_data.R R/process_bismark_beatson_wrap.R R/process_haib_caltech_wrap.R R/read_bs_bismark_cov.R R/read_bs_encode_haib.R R/read_bs_sc.R R/read_chrom_size.R R/read_encode_cgi.R R/read_rna_beatson.R R/read_rna_encode_caltech.R R/regression_model_gex.R R/sc_bayes_bpr_fdmm.R R/sc_bayes_bpr_fdmm_old.R R/sc_bpr_cluster_wrap.R R/utils.R README.md data-raw/create_data.R inst/doc/BPRMeth_vignette.R inst/doc/BPRMeth_vignette.pdf inst/doc/model-bpr.pdf man/BPRMeth.Rd man/betareg_cluster_wrap.Rd man/betareg_model.Rd man/betareg_optimize.Rd man/blr.Rd man/blr_cluster.Rd man/boxplot_cluster_gex.Rd man/bpr_EM_fast.Rd man/bpr_bayes.Rd man/bpr_bayes_predict_wrap.Rd man/bpr_cluster_wrap.Rd man/bpr_diff_classify_wrap.Rd man/bpr_diff_eval_predict_wrap.Rd man/bpr_diff_predict_wrap.Rd man/bpr_diff_test_data_wrap.Rd man/bpr_diff_test_wrap.Rd man/bpr_model.Rd man/bpr_optimize.Rd man/bpr_predict_wrap.Rd man/create_basis.Rd man/create_methyl_region.Rd man/create_prom_region.Rd man/design_matrix.Rd man/eval_functions.Rd man/gex_data.Rd man/lm_data.Rd man/meth_data.Rd man/plot_cluster_prof.Rd man/plot_fitted_profiles.Rd man/plot_scatter_gex.Rd man/pool_bs_seq_rep.Rd man/predict.blr.Rd man/predict_classification_model.Rd man/predict_model_gex.Rd man/preprocess_bs_seq.Rd man/preprocess_final_HTS_data.Rd man/print.blr.Rd man/print.summary.blr.Rd man/process_bismark_beatson_wrap.Rd man/process_haib_caltech_wrap.Rd man/read_bs_bismark_cov.Rd man/read_bs_encode_haib.Rd man/read_bs_sc.Rd man/read_chrom_size.Rd man/read_encode_cgi.Rd man/read_rna_beatson.Rd man/read_rna_encode_caltech.Rd man/sc_bayes_bpr_fdmm.Rd man/sc_bayes_bpr_fdmm_old.Rd man/sc_bpr_cluster_wrap.Rd man/summary.blr.Rd man/train_classification_model.Rd man/train_model_gex.Rd tests/testthat.R tests/testthat/test-basis.R tests/testthat/test-bpr.R tests/testthat/test-design_matrix.R tests/testthat/test-eval_function.R tests/testthat/test-utils.R vignettes/BPRMeth_vignette.R vignettes/BPRMeth_vignette.pdf vignettes/model-bpr.pdf