README.md

In pjward5656/kipRc: Common Functions used by KIPRC Analysts

kipRc

R functions commonly used by KIPRC epidemiologists and statisticians

Under development

Currently:

rate_ci()-function that calculates rate and 1-alpha confidence intervals

get_substances()-function that scans free-text for known substances and creates indicator variables for these substances

compare()-function to compare values in two dataframes, similar to SAS PROC COMPARE

id_ods()-function to filter a DC dataframe for drug overdose deaths

drugs-table containing a list of substance terms (names, mispellings, metabolites, etc) found in free text

class_lu-table containing a substance to drug class lookup

metabs-table containing a list of drugs with unique metabolites

pharm_lu-table that converts KIPRC REDCap drug class numbers to the class

subs_lu-table that converts KIPRC REDCap substance numbers to the substance

UCOD vector for drug overdose deaths

cste_indicators Function that addes CSTE overdose indicators to hospital claims data

icd_indicators Function that adds indicator variables for any ICD-10-CM code a user wishes to identify to hospital claims data.

To be added:

Age adjusted rates and confidence intervals

T-code vectors for drug identification

t_code()-function to create indicator variables for T codes associated with drug poisonings

reg_summary()-function to summarize a dataframe by a region variable

Percent change

Example: Take raw DCs, identify drug overdose deaths and pull substances from free text:

library(tidyverse)

df<-id_ods(deaths, C_UNDER_C) %>% 
  get_substances(data=., C_UNDER_MC, C_SUPP_MC1, C_SUPP_MC2, C_SUPP_MC3, C_SIGCC_MC, I_DESCRIPT)

pjward5656/kipRc documentation built on April 27, 2020, 10:34 p.m.