Man pages for vjcitn/AnvBiocFHIR
Use pyAnVIL and SMART infrastructure to work with AnVIL FHIR in R
| abfhir_demo | demonstrate object mediation |
| annotated_stores | annotated list of FHIR stores valid April 2022 |
| anv_fhir_get_stores | retrieve references to all stores |
| anv_fhir_test_find_patient | test extraction of Patient from a given store |
| anv_fhir_test_list_patients | retrieve patients in a ResearchStudy [current limit 1000,... |
| anv_fhir_test_resources | test extraction of studies for a given store |
| AnVILFHIRSet | constructor |
| AnVILFHIRSet-class | manage information on FHIR stores and contents |
| anvurl | long URL string for server announced at... |
| asymurl | long URL string for Asymetrik-based FHIR server |
| connect_smart | use pyAnVIL/SMART python infrastructure to connect to FHIR... |
| consent_abbrev_map | produce a table of disease/consent code strings in use at... |
| consent_codes | produce a table of dbGap consent codes, from Table 1 of... |
| get_gcp_token | get token via gcloud call |
| list_stores | produce vector of names of stores in FHIR server |
| phs2json | use FHIR API to get information about a store (possibly... |
| phs_desc | use FHIR API to get description from a resource (possibly... |
| resource_conditions | acquire information on conditions in a resource |
| resource_title | acquire title for a resource |
| show-AnVILFHIRSet-method | concise display for AnVILFHIRSet |
| simplify_condition | very rudimentary helper for rendering condition information |
| store_resources | provide information on all resources in a store |
| stores_2022_04 | list of FHIR stores in AnVIL valid April 2022 |
| study_names | extract names of studies |
| test_stores_url | URL for fhirStores FHIR structure |
