Package index • epidm

Utility Functions

Functions for reading or writing data from various sources

sql_clean() stable: Clean and Read a SQL query

sql_connect() stable: Connect to a SQL database

sql_read() stable: Read a table from a SQL database

sql_write() stable: Write a table to a SQL database

csv_from_zip() stable: Download a csv from a zip

lookup_recode() stable: Lookup table switch handler

Data Management Functions

Functions for handling, cleaning and processing public health data

valid_nhs() stable: NHS Number Validity Check

uk_patient_id() stable: Patient ID record grouping

proxy_episode_dates() stable: HES/SUS Episode Date Cleaning

cip_spells() stable: Continuous Inpatient (CIP) Spells

group_time() stable: Grouping of intervals or events in time together

respeciate_generic() stable: Respeciate unspecified samples

inpatient_codes() experimental: Inpatient Codes cleanup

Lookup tables

Lookup tables used to reclassify, regroup, or translate data

genus_gram_stain: Bacterial Genus Gram Stain Lookup Table

respeciate_organism: Respeciated organisms

specimen_type_grouping: Specimen type grouping

group_ecds_discharge_destination: A&E attendance discharge destination

group_inpatient_admission_method: Inpatient admission methods

group_inpatient_discharge_destination: Inpatient discharge destination

hospital_in_out_dates(): Hospital IN/OUT dates

Data

Synthetic dataset for testing package functionality

lab_data: Synthetic Lab Data for epidm