Gene_id_converter(id_list, API_url)
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ID_convert_to_preferred_name_nodeNormalizer(id_list)
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TCT_help(func)
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TRAPI_json_validation(query_json_cur_clean, ...)
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add_new_API_for_query(APInames, metaKG, ...)
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This function is used to add a new API beyond the current list of APIs for query Example: APInames, metaKG = add_new_API_for_query(APInames, metaKG, "BigGIM_BMG", "http://127.0.0.1:8000/find_path_by_predicate", "Gene-physically_interacts_with-gene", "Gene", "Gene") |
ask_chatGPT(prompt_text)
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ask_chatGPT4(prompt_text)
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connecting_two_dots_two_hops(sorted_dic1, ...)
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extract_json(txt)
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filter_APIs(sele_predicates, metaKG)
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find_link(name)
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find_path_by_two_ends(subject1_ids, ...)
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find_similar_category(query_json_cur_clean, ...)
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find_similar_predicates(...)
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format_id(query_json_cur_clean)
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format_query_json(subject_ids, object_ids, ...)
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Example input: subject_ids = ["NCBIGene:3845"] object_ids = [] subject_categories = ["biolink:Gene"] object_categories = ["biolink:Gene"] predicates = ["biolink:positively_correlated_with", "biolink:physically_interacts_with"] |
format_query_json_old(subject_ids, ...)
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Example input: subject_ids = ["NCBIGene:3845"] object_ids = [] subject_categories = ["biolink:Gene"] object_categories = ["biolink:Gene"] predicates = ["biolink:positively_correlated_with", "biolink:physically_interacts_with"] |
get_KP_metadata()
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get_SmartAPI_Translator_KP_info()
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Get the SmartAPI Translator KP info from the smart-api.info API. |
get_Translator_API_URL(API_sele, APInames)
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get_Translator_APIs()
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get_curie(name)
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get_pair_annotation(result, input_node_list)
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get_ranking_by_infores(sorted_dic, ...)
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get_ranking_by_kp(sorted_dic, ...)
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get_ranking_by_predicates(sorted_dic, ...)
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get_similar_category(query_json_cur_clean, ...)
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get_similar_predicate(query_json_cur_clean, ...)
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list_Translator_APIs()
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list_functions()
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load_json_template()
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merge_by_ranking_index(...[, top_n, ...])
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merge_ranking_by_number_of_infores(...[, ...])
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parallel_api_query(URLS, query_json[, ...])
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parse_KG(result)
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subject_object subject object predicate primary_knowledge_sources aggregator_knowledge_sources subject_predicate_object_primary_knowledge_sources_aggregator_knowledge_sources |
parse_network_result(result, input_node1_list)
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parse_pair_annotation(pairs_found, ...)
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parse_result_old(API_keys_sele, ...)
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plot_graph_by_API(for_plot)
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plot_graph_by_infores(for_plot)
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plot_graph_by_predicates(for_plot)
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plot_heatmap(predicates_by_nodes_df[, ...])
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plot_heatmap_ui(predicates_by_nodes_df[, ...])
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plot_path_bar(x, y[, fontsize, ...])
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query_KP(remoteURL, query_json)
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query_KP_all(subject_ids, object_ids, ...)
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query_chatGPT(customized_input[, model])
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query_chatGPT4(customized_input)
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rank_by_primary_infores(result_parsed, ...)
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Editd Dec 5, 2023 |
rank_by_primary_infores_input_as_list(...)
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Editd Dec 5, 2023 |
ranking_result_by_predicates_object(...)
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ranking_result_by_predicates_subject(...)
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select_API(sub_list, obj_list, metaKG)
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sub_list = ["biolink:Gene", "biolink:Protein"] obj_list = ["biolink:Gene", "biolink:Disease"] |
select_concept(sub_list, obj_list, metaKG)
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select_predicates_inKP(sub_list, obj_list, ...)
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sub_list = ["biolink:Gene", "biolink:Protein"] obj_list = ["biolink:Gene", "biolink:Disease"] KPname = "" # it should be one of the names in APInames |
select_result_to_analysis(sele_genes, ...)
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visulization_one_hop_ranking(...[, ...])
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visulization_one_hop_ranking_input_as_list(...)
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visulize_path(input_node1_id, ...)
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