API for ISAnalytics
Analyze gene therapy vector insertion sites data identified from genomics next generation sequencing reads for clonal tracking studies
| Global functions | |
|---|---|
| .add_info_widget | Source code |
| .af_col_types | Source code |
| .af_correctness_warning | Source code |
| .af_missing_path_error | Source code |
| .af_missing_pathfolder_error | Source code |
| .agg_iss_cols | Source code |
| .agg_with_null_meta_err | Source code |
| .aggregate_lambda | Source code |
| .all_match | Source code |
| .annotation_IS_types | Source code |
| .any_match | Source code |
| .auto_detect_type | Source code |
| .check_af_correctness | Source code |
| .check_col_correct | Source code |
| .check_cols_to_compare_param | Source code |
| .check_comparators_param | Source code |
| .check_complAmpID | Source code |
| .check_file_extension | Source code |
| .check_file_system_alignment | Source code |
| .check_length_list_params | Source code |
| .check_length_vector_params | Source code |
| .check_mandatory_vars | Source code |
| .check_same_info | Source code |
| .check_stats | Source code |
| .check_threshold_param | Source code |
| .check_value_col | Source code |
| .checker_widget | Source code |
| .choose_duplicates_files_interactive | Source code |
| .coll_mapping | Source code |
| .collisions_widget | Source code |
| .comparators_err | Source code |
| .compressed_formats | Source code |
| .default_theme | Source code |
| .diff_leng_args | Source code |
| .discriminate_by_date | Source code |
| .discriminate_by_replicate | Source code |
| .discriminate_by_seqCount | Source code |
| .export_widget_file | Source code |
| .files_found_count | Source code |
| .files_found_details_row | Source code |
| .files_found_files | Source code |
| .files_found_widget | Source code |
| .files_imported_widget | Source code |
| .files_to_import_widget | Source code |
| .filter_db | Source code |
| .find_exp_cols | Source code |
| .find_unique_max | Source code |
| .four_step_check | Source code |
| .generate_filename | Source code |
| .generate_react_table | Source code |
| .generate_react_table_mini | Source code |
| .generate_react_table_sharing_colored | Source code |
| .identify_independent_samples | Source code |
| .import_report_widget | Source code |
| .import_single_matrix | Source code |
| .import_stats_iss | Source code |
| .import_type | Source code |
| .interactive_select_pools_import | Source code |
| .interactive_select_projects_import | Source code |
| .is_annotated | Source code |
| .iss_import_widget | Source code |
| .join_and_aggregate | Source code |
| .join_matrix_af | Source code |
| .key_not_found | Source code |
| .key_without_tp_err | Source code |
| .lentiviral_CIS_paper | Source code |
| .list_names_to_mod | Source code |
| .list_params_err | Source code |
| .load_onco_ts_genes | Source code |
| .lookup_matrices | Source code |
| .lookup_matrices_auto | Source code |
| .malformed_ISmatrix_error | Source code |
| .manage_anomalies_auto | Source code |
| .manage_anomalies_interactive | Source code |
| .manage_association_file | Source code |
| .mandatory_IS_types | Source code |
| .max_val_col_warning | Source code |
| .max_val_stop_error | Source code |
| .merge_onco_tumsup | Source code |
| .messy_to_tidy | Source code |
| .min_var_set | Source code |
| .missing_annot | Source code |
| .missing_complAmpID_error | Source code |
| .missing_info_widget | Source code |
| .missing_num_cols_error | Source code |
| .missing_user_cols_error | Source code |
| .missing_user_cols_list_error | Source code |
| .missing_value_col_error | Source code |
| .names_list_param_err | Source code |
| .nas_introduced_msg | Source code |
| .no_collisions_msg | Source code |
| .non_ISM_error | Source code |
| .non_num_user_cols_error | Source code |
| .non_quant_cols_error | Source code |
| .non_quant_cols_msg | Source code |
| .non_standard_annotation_structure | Source code |
| .obtain_nested | Source code |
| .onAttach | Source code |
| .parallel_import_merge | Source code |
| .param_names_not_equal_err | Source code |
| .param_names_not_in_list_err | Source code |
| .pattern_matching | Source code |
| .pool_choices_IN | Source code |
| .pool_number_IN | Source code |
| .process_collisions | Source code |
| .quant_types_error | Source code |
| .read_af | Source code |
| .read_with_fread | Source code |
| .read_with_readr | Source code |
| .recalibr_map_widget | Source code |
| .sc_stats_after | Source code |
| .sc_stats_input | Source code |
| .sc_stats_input_joined | Source code |
| .sharing_widget | Source code |
| .sliding_window | Source code |
| .stats_columns_min | Source code |
| .stats_report | Source code |
| .summary_af_import_msg | Source code |
| .summary_ism_import_msg | Source code |
| .summary_ism_par_import_msg | Source code |
| .summary_table | Source code |
| .supported_fread_compression_formats | Source code |
| .tf_data_frame | Source code |
| .tf_list | Source code |
| .threshold_err | Source code |
| .trace_anomalies | Source code |
| .unnamed_list_err | Source code |
| .unsupported_comp_format_inf | Source code |
| .update_af_after_alignment | Source code |
| .update_as_option | Source code |
| .using_val_col_warning | Source code |
| .warning_update_after_alignment | Source code |
| .widget_css | Source code |
| .widgets_error | Source code |
| .widgets_save_error | Source code |
| .write_recalibr_map | Source code |
| .xls_file_warning | Source code |
| CIS_grubbs | Man page Source code |
| CIS_volcano_plot | Man page Source code |
| ISAnalytics | Man page |
| aggregate_metadata | Man page Source code |
| aggregate_values_by_key | Man page Source code |
| annotation_IS_vars | Man page Source code |
| as_sparse_matrix | Man page Source code |
| association_file_columns | Man page Source code |
| clinical_relevant_suspicious_genes | Man page Source code |
| comparison_matrix | Man page Source code |
| compute_abundance | Man page Source code |
| compute_near_integrations | Man page Source code |
| cumulative_count_union | Man page Source code |
| date_columns_coll | Man page Source code |
| date_formats | Man page Source code |
| default_stats | Man page Source code |
| generate_Vispa2_launch_AF | Man page Source code |
| generate_blank_association_file | Man page Source code |
| import_association_file | Man page Source code |
| import_parallel_Vispa2Matrices_auto | Man page Source code |
| import_parallel_Vispa2Matrices_interactive | Man page Source code |
| import_single_Vispa2Matrix | Man page Source code |
| known_clinical_oncogenes | Man page Source code |
| mandatory_IS_vars | Man page Source code |
| matching_options | Man page Source code |
| quantification_types | Man page Source code |
| realign_after_collisions | Man page Source code |
| reduced_AF_columns | Man page Source code |
| remove_collisions | Man page Source code |
| sample_statistics | Man page Source code |
| separate_quant_matrices | Man page Source code |
| threshold_filter | Man page Source code |
| top_integrations | Man page Source code |
| unzip_file_system | Man page Source code |
