These are the flags for the execution process of EnTAP. Flags will be repeated throughout these categories where relevant. These will be used via the command line (denoted CMD) or ini file (denoted INI).
Required_Flags/required_flags.rst Basic_Flags/basic_flags.rst General_EnTAP_Flags/general_flags.rst Expression_Flags/expression_flags.rst Frame_Selection_Flags/frame_selection_flags.rst Similarity_Flags/similarity_search_flags.rst Ontology_Flags/ontology_flags.rst API_Flags/api_flags.rst