Files in MPIIComputationalEpigenetics/DeepBlue-R

DeepBlueR

R/caching.R R/class_DeepBlueCommand.R R/deepblue.R R/export.R R/helperFunctions.R R/internalFunctions.R R/liftover.R R/methods_DeepBlueCommand.R R/options.R R/zzz.R README.md build/examples/deepblue.add_annotation.R build/examples/deepblue.add_biosource.R build/examples/deepblue.add_epigenetic_mark.R build/examples/deepblue.add_experiment.R build/examples/deepblue.add_gene_model.R build/examples/deepblue.add_genome.R build/examples/deepblue.add_project.R build/examples/deepblue.add_sample.R build/examples/deepblue.add_sample_from_gsm.R build/examples/deepblue.add_technique.R build/examples/deepblue.add_user_to_project.R build/examples/deepblue.aggregate.R build/examples/deepblue.binning.R build/examples/deepblue.cancel_request.R build/examples/deepblue.change_extra_metadata.R build/examples/deepblue.chromosomes.R build/examples/deepblue.clone_dataset.R build/examples/deepblue.collection_experiments_count.R build/examples/deepblue.column_types.R build/examples/deepblue.commands.R build/examples/deepblue.count_gene_ontology_terms.R build/examples/deepblue.count_regions.R build/examples/deepblue.coverage.R build/examples/deepblue.create_column_type_calculated.R build/examples/deepblue.create_column_type_category.R build/examples/deepblue.create_column_type_range.R build/examples/deepblue.create_column_type_simple.R build/examples/deepblue.distinct_column_values.R build/examples/deepblue.echo.R build/examples/deepblue.enrich_regions_go_terms.R build/examples/deepblue.enrich_regions_overlap.R build/examples/deepblue.extend.R build/examples/deepblue.extract_ids.R build/examples/deepblue.extract_names.R build/examples/deepblue.faceting_experiments.R build/examples/deepblue.filter_regions.R build/examples/deepblue.find_motif.R build/examples/deepblue.flank.R build/examples/deepblue.get_biosource_children.R build/examples/deepblue.get_biosource_parents.R build/examples/deepblue.get_biosource_related.R build/examples/deepblue.get_biosource_synonyms.R build/examples/deepblue.get_experiments_by_query.R build/examples/deepblue.get_regions.R build/examples/deepblue.get_request_data.R build/examples/deepblue.get_state.R build/examples/deepblue.info.R build/examples/deepblue.input_regions.R build/examples/deepblue.intersection.R build/examples/deepblue.is_biosource.R build/examples/deepblue.list_annotations.R build/examples/deepblue.list_biosources.R build/examples/deepblue.list_column_types.R build/examples/deepblue.list_epigenetic_marks.R build/examples/deepblue.list_experiments.R build/examples/deepblue.list_expressions.R build/examples/deepblue.list_gene_models.R build/examples/deepblue.list_genes.R build/examples/deepblue.list_genomes.R build/examples/deepblue.list_in_use.R build/examples/deepblue.list_projects.R build/examples/deepblue.list_recent_experiments.R build/examples/deepblue.list_requests.R build/examples/deepblue.list_samples.R build/examples/deepblue.list_similar_biosources.R build/examples/deepblue.list_similar_epigenetic_marks.R build/examples/deepblue.list_similar_experiments.R build/examples/deepblue.list_similar_genomes.R build/examples/deepblue.list_similar_projects.R build/examples/deepblue.list_similar_techniques.R build/examples/deepblue.list_techniques.R build/examples/deepblue.merge_queries.R build/examples/deepblue.name_to_id.R build/examples/deepblue.overlap.R build/examples/deepblue.preview_experiment.R build/examples/deepblue.query_cache.R build/examples/deepblue.query_experiment_type.R build/examples/deepblue.remove.R build/examples/deepblue.score_matrix.R build/examples/deepblue.search.R build/examples/deepblue.select_annotations.R build/examples/deepblue.select_experiments.R build/examples/deepblue.select_expressions.R build/examples/deepblue.select_genes.R build/examples/deepblue.select_regions.R build/examples/deepblue.set_biosource_parent.R build/examples/deepblue.set_biosource_synonym.R build/examples/deepblue.set_project_public.R build/examples/deepblue.tiling_regions.R build/examples/deepblue.upload_chromosome.R build/serialize.R build/update_package.R demo/use_case1.R demo/use_case2.R demo/use_case3.R demo/use_case4.R demo/use_case5.R man/DeepBlueCommand-class.Rd man/deepblue_aggregate.Rd man/deepblue_batch_export_results.Rd man/deepblue_binning.Rd man/deepblue_cache_status.Rd man/deepblue_cancel_request.Rd man/deepblue_chromosomes.Rd man/deepblue_clear_cache.Rd man/deepblue_collection_experiments_count.Rd man/deepblue_column_types.Rd man/deepblue_commands.Rd man/deepblue_convert_to_df.Rd man/deepblue_convert_to_grange.Rd man/deepblue_count_gene_ontology_terms.Rd man/deepblue_count_regions.Rd man/deepblue_coverage.Rd man/deepblue_delete_request_from_cache.Rd man/deepblue_diff.Rd man/deepblue_distinct_column_values.Rd man/deepblue_download_request_data-DeepBlueCommand-method.Rd man/deepblue_download_request_data.Rd man/deepblue_echo.Rd man/deepblue_enrich_regions_fast.Rd man/deepblue_enrich_regions_go_terms.Rd man/deepblue_enrich_regions_overlap.Rd man/deepblue_export_bed.Rd man/deepblue_export_meta_data.Rd man/deepblue_export_tab.Rd man/deepblue_extend.Rd man/deepblue_extract_ids.Rd man/deepblue_extract_names.Rd man/deepblue_faceting_experiments.Rd man/deepblue_filter_regions.Rd man/deepblue_find_motif.Rd man/deepblue_flank.Rd man/deepblue_format_object_size.Rd man/deepblue_get_biosource_children.Rd man/deepblue_get_biosource_parents.Rd man/deepblue_get_biosource_related.Rd man/deepblue_get_biosource_synonyms.Rd man/deepblue_get_db.Rd man/deepblue_get_experiments_by_query.Rd man/deepblue_get_regions.Rd man/deepblue_get_request_data.Rd man/deepblue_info.Rd man/deepblue_input_regions.Rd man/deepblue_intersection.Rd man/deepblue_is_biosource.Rd man/deepblue_liftover.Rd man/deepblue_list_annotations.Rd man/deepblue_list_biosources.Rd man/deepblue_list_cached_requests.Rd man/deepblue_list_column_types.Rd man/deepblue_list_epigenetic_marks.Rd man/deepblue_list_experiments.Rd man/deepblue_list_expressions.Rd man/deepblue_list_gene_models.Rd man/deepblue_list_genes.Rd man/deepblue_list_genomes.Rd man/deepblue_list_in_use.Rd man/deepblue_list_projects.Rd man/deepblue_list_recent_experiments.Rd man/deepblue_list_requests.Rd man/deepblue_list_samples.Rd man/deepblue_list_similar_biosources.Rd man/deepblue_list_similar_epigenetic_marks.Rd man/deepblue_list_similar_experiments.Rd man/deepblue_list_similar_genomes.Rd man/deepblue_list_similar_projects.Rd man/deepblue_list_similar_techniques.Rd man/deepblue_list_techniques.Rd man/deepblue_merge_queries.Rd man/deepblue_meta_data_to_table.Rd man/deepblue_name_to_id.Rd man/deepblue_options.Rd man/deepblue_overlap.Rd man/deepblue_parse_gtf.Rd man/deepblue_preview_experiment.Rd man/deepblue_query_cache.Rd man/deepblue_query_experiment_type.Rd man/deepblue_reset_options.Rd man/deepblue_score_matrix.Rd man/deepblue_search.Rd man/deepblue_select_annotations.Rd man/deepblue_select_column.Rd man/deepblue_select_experiments.Rd man/deepblue_select_expressions.Rd man/deepblue_select_genes.Rd man/deepblue_select_regions.Rd man/deepblue_switch_get_request_data.Rd man/deepblue_tiling_regions.Rd man/deepblue_wait_request.Rd man/show-DeepBlueCommand-method.Rd man/xml.rpc.Rd vignettes/DeepBlueR.Rmd