Files in nignatiadis/ihwPaper
Reproduce figures in IHW paper
.travis.yml
DESCRIPTION
NAMESPACE
R/RcppExports.R
R/analyze_datasets.R
R/benchmarking.R
R/covariate_methods.R
R/ddhw_wrappers.R
R/pi0_estimators.R
R/plots.R
R/simple_methods.R
R/simulations.R
R/stratified_methods.R
README.md
external_data_store.txt
inst/CITATION
inst/extdata/real_data/bottomly_eset.RData
inst/extdata/real_data/hammer_eset.RData
inst/extdata/real_data/hqtl_chrom1_chrom2/chr1_subset.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/chr2_subset.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/hqtl_estimated_lfdrs.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/m_groups_chr1.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/m_groups_chr2.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/peak_locations.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/snppos_chr1.Rds
inst/extdata/real_data/hqtl_chrom1_chrom2/snppos_chr2.Rds
inst/extdata/real_data/hqtl_pvalue_filtered.Rds
inst/extdata/real_data/science_signaling.csv
inst/real_data_examples/RNAseq_example_analysis.R
inst/real_data_examples/hqtl_example_analysis.R
inst/real_data_examples/proteomics_example_analysis.R
inst/real_data_examples/readme.md
inst/real_data_examples/result_files/RNAseq_benchmark.Rds
inst/real_data_examples/result_files/hQTL_benchmark.Rds
inst/real_data_examples/result_files/proteomics_benchmark.Rds
inst/simulation_benchmarks/ihw_bonferroni_du_ttest_informative_simulation_benchmark_E3.R
inst/simulation_benchmarks/ihw_bonferroni_du_ttest_informative_simulation_benchmark_E3.sh
inst/simulation_benchmarks/ihw_bonferroni_null_simulation_benchmark.R
inst/simulation_benchmarks/ihw_bonferroni_null_simulation_benchmark.sh
inst/simulation_benchmarks/ihw_bonferroni_wasserman_normal_simulations_benchmark_E3.R
inst/simulation_benchmarks/ihw_bonferroni_wasserman_normal_simulations_benchmark_E3.sh
inst/simulation_benchmarks/ihw_du_ttest_informative_simulation_benchmark.R
inst/simulation_benchmarks/ihw_du_ttest_informative_simulation_benchmark_E3.R
inst/simulation_benchmarks/ihw_du_ttest_informative_simulation_benchmark_grb.R
inst/simulation_benchmarks/ihw_null_simulation_benchmark.R
inst/simulation_benchmarks/ihw_null_simulation_benchmark_E3.R
inst/simulation_benchmarks/ihw_null_simulation_benchmark_grb.R
inst/simulation_benchmarks/ihw_wasserman_normal_prds_simulations_benchmark.R
inst/simulation_benchmarks/ihw_wasserman_normal_prds_simulations_benchmark.sh
inst/simulation_benchmarks/ihw_wasserman_normal_simulations_benchmark.R
inst/simulation_benchmarks/ihw_wasserman_normal_simulations_benchmark_E3.R
inst/simulation_benchmarks/ihw_wasserman_normal_simulations_benchmark_grb.R
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_1.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_10.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_11.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_12.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_13.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_14.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_15.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_16.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_17.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_18.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_19.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_2.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_20.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_3.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_4.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_5.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_6.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_7.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_8.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_du_ttest_informative/par_setting_9.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_1.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_10.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_2.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_3.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_4.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_5.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_6.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_7.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_8.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_null/par_setting_9.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_1.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_10.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_2.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_3.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_4.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_5.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_6.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_7.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_8.Rds
inst/simulation_benchmarks/result_files/ihw_bonf_wasserman_normal/par_setting_9.Rds
inst/simulation_benchmarks/result_files/ihw_du_ttest_inform_simulation_benchmark.Rds
inst/simulation_benchmarks/result_files/ihw_du_ttest_inform_simulation_benchmark_E3.Rds
inst/simulation_benchmarks/result_files/ihw_du_ttest_inform_simulation_benchmark_grb.Rds
inst/simulation_benchmarks/result_files/ihw_null_simulation_benchmark.Rds
inst/simulation_benchmarks/result_files/ihw_null_simulation_benchmark_E3.Rds
inst/simulation_benchmarks/result_files/ihw_null_simulation_benchmark_grb.Rds
inst/simulation_benchmarks/result_files/ihw_wasserman_normal_simulation_benchmark.Rds
inst/simulation_benchmarks/result_files/ihw_wasserman_normal_simulation_benchmark_E3.Rds
inst/simulation_benchmarks/result_files/ihw_wasserman_normal_simulation_benchmark_grb.Rds
inst/simulation_benchmarks/result_files/null_simulation_benchmark.Rds
inst/simulation_benchmarks/theory_paper/ihwc_wasserman_normal_sim.Rds
inst/simulation_benchmarks/theory_paper/ihwc_wasserman_normal_simulation.R
man/analyze_dataset.Rd
man/bh.Rd
man/bonf.Rd
man/clfdr.Rd
man/continuous_wrap.Rd
man/ddhf.Rd
man/du_ttest_sim.Rd
man/gbh.Rd
man/ihw_naive.Rd
man/lsl_pi0_est.Rd
man/null_sim.Rd
man/pretty_legend.Rd
man/run_evals.Rd
man/scott_fdrreg.Rd
man/storey_qvalue.Rd
man/stratified_bh.Rd
man/tst_pi0_est.Rd
man/wasserman_normal_prds_sim.Rd
man/wasserman_normal_sim.Rd
src/RcppExports.cpp
src/ddhf.cpp
tests/testthat.R
tests/testthat/test_analyze_datasets.R
tests/testthat/test_sim_benchmarks.R
vignettes/BH-explanation.Rmd
vignettes/IHW_bonferroni_simulations.Rmd
vignettes/bibliography.bib
vignettes/explaining_tdr.Rmd
vignettes/grenander_vs_ecdf.Rmd
vignettes/hqtl_IHW_BY.Rmd
vignettes/real_data_examples.Rmd
vignettes/real_data_examples_single_curve.Rmd
vignettes/simulations_vignette.Rmd
vignettes/stratified_histograms.Rmd
vignettes/tdr_pvalue_rejection_thresholds.Rmd
vignettes/weights_vs_filtering.Rmd
