Files in GAPGOM

GAPGOM (novel Gene Annotation Prediction and other GO Metrics)

README.md R/dag_functions.R R/expset.R R/misc_functions.R R/similarity_prediction.R R/similarity_scoring.R R/topoicsim_algorithms.R R/user_data_preparation.R R/zzz.R R/parsing_functions.R R/id_translation_df.R R/data_preparation.R R/enrichment_analysis.R R/geometrical_measures.R R/argument_checks.R vignettes/GAPGOM.Rmd vignettes/benchmarks.Rmd data-raw/expset_translation_id.R data-raw/sysdata.R data-raw/freq_go_pairs.R man/fantom_download.Rd man/dot-prepare_score_matrix_topoicsim.Rd man/dot-unique_combos.Rd man/dot-get_package_version.Rd man/dot-resolve_keys_col.Rd man/dot-entrezraw_to_entrez.Rd man/dot-organism_to_species_lib.Rd man/dot-generate_translation_df.Rd man/glb_checks.Rd man/topo_ic_sim_genes.Rd man/expset.Rd man/ambiguous_functions.Rd man/dot-go_ids_lookup.Rd man/set_go_data.Rd man/dot-resolve_genes_unique_gos.Rd man/geometrical_measures.Rd man/dag_funcs.Rd man/dot-fantom_filter_entrez.Rd man/fantom_load_raw.Rd man/dot-topo_ic_sim_geneset.Rd man/dot-set_identical_items.Rd man/fantom_to_expset.Rd man/misc_functions.Rd man/dot-enrichment_analysis.Rd man/dot-topo_ic_sim_g1g2.Rd man/topo_ic_sim_term.Rd man/dot-term_id_to_ext_id.Rd man/dot-set_values.Rd man/dot-prepare_score_df.Rd man/expression_prediction.Rd man/expression_semantic_scoring.Rd man/id_translation_df.Rd man/dot-topo_ic_sim_titj.Rd man/dot-prepare_variables_topoicsim.Rd man/dot-ext_id_to_term_id.Rd tests/testthat.R tests/testthat/test_parsing.R tests/testthat/test_misc.R tests/testthat/test_lncrnapred.R tests/testthat/test_topo.R inst/doc/benchmarks.R inst/doc/GAPGOM.Rmd inst/doc/GAPGOM.R inst/doc/benchmarks.Rmd inst/scripts/chrom_pos.R inst/scripts/TopoICSim_ORIGINALSCRIPT.R inst/scripts/reproduce_original_lncRNA2GOA.R inst/scripts/prediction_of_lncRNA_ORIGINALSCRIPT.R