Files in andreaskapou/BPRMeth
Model higher-order methylation profiles
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/BPRMeth_package.R
R/RcppExports.R
R/basis_functions.R
R/cluster_profiles_mle.R
R/cluster_profiles_vb.R
R/data.R
R/deprecated_functions.R
R/deprecated_process_functions.R
R/design_matrix.R
R/infer_profiles_gibbs.R
R/infer_profiles_mle.R
R/infer_profiles_vb.R
R/model_log_likelihood.R
R/plotting_functions.R
R/predict_expr.R
R/process_data.R
R/utils.R
README.md
data-raw/create_encode_data.R
data-raw/create_synth_data.R
data/bernoulli_data.rda
data/beta_data.rda
data/binomial_data.rda
data/encode_expr.rda
data/encode_met.rda
data/gaussian_data.rda
data/gex_data.rda
data/meth_data.rda
inst/CITATION
inst/NEWS.Rd
inst/extdata/dummy_anno.bed
inst/extdata/dummy_expr.bed
inst/extdata/dummy_met.bed
inst/extdata/hg19.chr.sizes
inst/extdata/rnaseq.bed
inst/extdata/rrbs.bed
inst/figures/bprmeth-workflow.png
inst/figures/model.png
inst/figures/workflow.png
man/BPRMeth.Rd
man/bernoulli_data.Rd
man/beta_data.Rd
man/binomial_data.Rd
man/boxplot_cluster_expr.Rd
man/bpr_cluster_wrap.Rd
man/bpr_optimize.Rd
man/bpr_predict_wrap.Rd
man/cluster_profiles_mle.Rd
man/cluster_profiles_vb.Rd
man/create_anno_region.Rd
man/create_basis.Rd
man/create_region_object.Rd
man/design_matrix.Rd
man/encode_expr.Rd
man/encode_met.Rd
man/eval_functions.Rd
man/gaussian_data.Rd
man/gex_data.Rd
man/impute_bulk_met.Rd
man/infer_profiles_gibbs.Rd
man/infer_profiles_mle.Rd
man/infer_profiles_vb.Rd
man/inner_predict_model_expr.Rd
man/inner_train_model_expr.Rd
man/meth_data.Rd
man/model_log_likelihood.Rd
man/old_boxplot_cluster_gex.Rd
man/old_plot_cluster_prof.Rd
man/old_plot_fitted_profiles.Rd
man/partition_bulk_dataset.Rd
man/plot_cluster_profiles.Rd
man/plot_infer_profiles.Rd
man/plot_predicted_expr.Rd
man/pool_bs_seq_rep.Rd
man/predict_expr.Rd
man/preprocess_bs_seq.Rd
man/preprocess_final_HTS_data.Rd
man/process_haib_caltech_wrap.Rd
man/read_anno.Rd
man/read_bs_encode_haib.Rd
man/read_chrom_size.Rd
man/read_expr.Rd
man/read_met.Rd
man/read_rna_encode_caltech.Rd
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/model_likelihood.cpp
tests/testthat.R
tests/testthat/test-basis.R
tests/testthat/test-design_matrix.R
tests/testthat/test-eval_function.R
tests/testthat/test-likelihoods.R
tests/testthat/test-utils.R
vignettes/BPRMeth_vignette.R
vignettes/BPRMeth_vignette.Rmd
vignettes/BPRMeth_vignette.html
