Man pages for rmgpanw/codemapper
Functions for Mapping Between Clinical Coding Systems
| all_lkps_maps_to_db | Build a SQLite database of clinical code look up and mapping... |
| build_all_lkps_maps | Build named list of clinical code look up and mapping tables |
| build_all_lkps_maps_dummy | Create a dummy all_lkps_maps |
| code_descriptions_like | Search for codes that match a description |
| codemapper_metadata | Metadata |
| codemapper-package | codemapper: Functions for Mapping Between Clinical Coding... |
| codes_starting_with | Get codes that start with... |
| default_col_filters | Default filtering parameters for lookup and mapping tables. |
| default_overlapping_disease_categories_csv | CSV file for resolving overlapping disease categories in... |
| download_caliber_repo | Download the caliber github repository |
| dummy_all_lkps_maps_path | Dummy UK Biobank resource 592 file path |
| dummy_caliber_dir_path | Dummy CALIBER repository |
| dummy_clinical_events_tidy | Dummy UK Biobank clinical events, tidied |
| dummy_icd10_phecode_map_path | Dummy Phecode Map 1.2 with ICD-10 codes (beta) file path |
| dummy_phecode_lkp_path | Dummy Phecode definitions file path |
| dummy_ukb_codings_path | Dummy UK Biobank codings file path |
| get_caliber_categories_mapping | Get a mapping table of CALIBER phenotypes/categories |
| get_mapping_df | Get a 'from-to' mapping data frame |
| get_nhsbsa_snomed_bnf | Download and read the NHSBSA BNF_SNOMED mapping file |
| get_phecode_definitions | Download the Phecode 1.2 definitions file |
| get_phecode_icd10_map | Download the Phecode 1.2 to ICD10 (beta) mapping file |
| get_phecode_icd9_map | Download the Phecode 1.2 to ICD9 mapping file |
| get_ukb_all_lkps_maps | Get UK Biobank resource 592 directly from UKB website |
| get_ukb_self_report_med_to_atc_map | Download and read a UKB welf-reported medication code to ATC... |
| lookup_codes | Look up descriptions for clinical codes |
| make_phecode_reverse_map | Reverse map from phecodes to Read and ICD 9 |
| map_clinical_events_to_phecodes | Map UK Biobank clinical events to phecodes |
| map_codes | Map clinical codes from one coding system to another |
| pipe | Pipe operator |
| read_all_lkps_maps | Read UK Biobank resource 592 into a named list |
| read_all_lkps_maps_dummy | Read dummy UK Biobank resource 592 into R |
| read_caliber_raw | Import CALIBER code lists |
| read_icd10_phecode_map_dummy | Read dummy Phecode Map 1.2 with ICD-10 codes (beta) file into... |
| read_phecode_lkp_dummy | Read dummy Phecode definitions file into R |
| read_ukb_codings_dummy | Read dummy UK Biobank codings into R |
| reformat_caliber_for_ukb | Reformat and map CALIBER codes for use with UK Biobank data |
| reformat_icd10_codes | Reformat ICD-10 codes |
| runCodelistBuilder | Create a clinical codelist with R Shiny. |
