Files in cbg-ethz/GeneAccord
Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients

.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/GeneAccord_main_functions.R R/data.R R/data_handling_functions.R R/databases_handling_functions.R R/plot_functions.R R/sim_functions.R R/stats_functions.R README.md
data/all_genes_tbl.RData
data/avg_rates_m.RData
data/clone_tbl_all_pats_all_trees.RData
data/ecdf_list.RData
data/ensg_reactome_path_map.RData
data/ensmusg_reactome_path_map.RData
data/list_of_clon_excl_all_pats.RData
data/list_of_num_trees_all_pats.RData
inst/CITATION
inst/NEWS.Rd
inst/extdata/Cartoon_GeneAccordAlgorithm_Rpackage.png
inst/extdata/README
inst/extdata/clonal_genotypes/cloe_seed10/01.csv
inst/extdata/clonal_genotypes/cloe_seed10/02.csv
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inst/extdata/prepare_patient_data_all.R man/GeneAccord.Rd man/all_genes_tbl.Rd man/avg_rates_m.Rd man/build_null_test_statistic.Rd man/clone_tbl_all_pats_all_trees.Rd man/compute_rates_clon_excl.Rd man/compute_test_stat_avg_rate.Rd man/convert_ensembl_to_reactome_pw_tbl.Rd man/create_ensembl_gene_tbl_hg.Rd man/create_tbl_ent_clones.Rd man/create_tbl_tree_collection.Rd man/ecdf_list.Rd man/ecdf_lr_test_clon_excl_avg_rate.Rd man/ensembl_to_hgnc.Rd man/ensembl_to_reactome.Rd man/ensg_reactome_path_map.Rd man/ensmusg_reactome_path_map.Rd man/extract_num_clones_tbl.Rd man/generate_ecdf_test_stat.Rd man/generate_test_stat_hist.Rd man/get_hist_clon_excl.Rd man/get_hist_clon_excl_this_pat_this_pair.Rd man/get_rate_diff_branch_ent_pair.Rd man/heatmap_clones_gene_pat.Rd man/hgnc_to_ensembl.Rd man/is_diff_branch_ent_pair.Rd man/list_of_clon_excl_all_pats.Rd man/list_of_num_trees_all_pats.Rd man/map_pairs_to_hgnc_symbols.Rd man/merge_clones_identical_ents.Rd man/pairs_in_patients_hist.Rd man/plot_ecdf_test_stat.Rd man/plot_rates_clon_excl.Rd man/take_pairs_and_get_patients.Rd man/vis_pval_distr_num_pat.Rd man/write_res_pairs_to_disk.Rd tests/testthat.R tests/testthat/test_GeneAccord_main_functions.R tests/testthat/test_data_handling_functions.R tests/testthat/test_databases_handling_functions.R tests/testthat/test_plot_functions.R tests/testthat/test_sim_functions.R tests/testthat/test_stats_functions.R vignettes/GeneAccord.Rmd
cbg-ethz/GeneAccord documentation built on Aug. 12, 2018, 12:14 a.m.