getAdmLimits: Get Admission time

In tagteam/heaven: Data Preparation Routines for Medical Registry Data

Get Admission time

Description

Adds first admission date and last discharge date to a sequence of admissions. The default input data.table is the current standard by which admissions are available in Statistics Denmark.

Usage

getAdmLimits(
  dt,
  pnr = "pnr",
  inddto = "inddto",
  uddto = "uddto",
  keep = NULL,
  collapse = FALSE,
  error = "warn"
)

Arguments

dt	data.table containing the variables
pnr	Variable with ID for each subject/group (default is pnr).
inddto	Variable with entry times. Must be date or numeric (default is inddto).
uddto	Variable with exit times. Must be date or numeric (default is uddto).
keep	Vector of names of variables of dt to keep in the output
collapse	if TRUE return only the lines with non-overlapping admissions
error	Character. One of "warn", "remove" remove lines with errors, "flag" add a new variable called error. An error is defined as either a missing value in either inddto or uddto or when inddto>uddto.

Value

data.table with two new variables first.indate and last.outdate.

Author(s)

Thomas A. Gerds <[e-mail]>

Examples

set.seed(8)
lpr <- simAdmissionData(10)
## Variables have default names
adm <- getAdmLimits(lpr)

## with errors
lpr1 <- lpr
lpr1 <- lpr1[uddto>as.Date("2010-01-01"),uddto:=NA]
adm1 <- getAdmLimits(lpr1)
adm1 <- getAdmLimits(lpr1,error="remove")
adm1 <- getAdmLimits(lpr1,error="flag")

## case where Variables have custom names
data.table::setnames(lpr, c('pnr','inddto','uddto'), c('personid', 'Entrydate','Outdate'))
adm2 <- getAdmLimits(lpr,pnr='personid',inddto='Entrydate',uddto='Outdate')

## duplicated and overlap
set.seed(8)
lpr3 <- simAdmissionData(10)
lpr3 <- lpr3[sample(1:NROW(lpr3),replace=TRUE,size=round(NROW(lpr3)*1.5))]
adm3 <- getAdmLimits(lpr3,collapse=TRUE)

tagteam/heaven documentation built on April 26, 2024, 6:22 a.m.