hagelloch_raw: Measles in Hagelloch, Germany, 1861

In skgallagher/EpiCompare: A Pipeline to Analyze and Compare Infectious Disease Epidemics

Description

The data comprise of 188 cases of measles among children in the German city of Hagelloch, 1861. The data were originally collected by Dr. Albert Pfeilsticker (1863) and augmented and re-analysed by Dr. Heike Oesterle (1992). This data comes from the package outbreaks.

hallegoch_raw contains the exact data as desired in this document. hallegoch_raw2 has a few rows that have no recorded times tR and tI which the user can image means the individual never reached the Recovery or Infected state (note if tI is NA, then so is tR). Additionally, hallegoch_raw2 has 2 individuals that are in recovery at the start of the observational approach, and as such have tR, tI, tPRE, and tERU that are negative.

Usage

hagelloch_raw

hagelloch_raw2

hagelloch_aug_births

Format

A data frame with 188 rows and 12 columns

PN

Patient number (Case ID) per individual

NAME

Patient's last name

FN

Family number (individuals with matching FN are in the same family)

HN

Household number ((individuals with matching HN are in the same household)

AGE

Age in years (fractions ignored)

SEX

Gender of the individual (factor: female; male)

PRO

Date of onset of prodromal symptoms

ERU

Date of onset of rash (not 100 sure of this one)

CL

School class (factor: preschool; 1st class; 2nd class )

DEAD

Date of death (with missings)

IFTO

number of patient who is the putative source of infection (0 = unknown)

SI

serial interval = number of days between dates of prodromes of infection source and infected person

C

Complications (factor: "no complications", or what complication)

PR

duration of prodromes in days

CA

number of cases in family

NI

number of initial cases

GE

generation number of the case

TD

day of max. fever (days after rush)

TM

max.fever (degree Celsius)

x.loc

x coordinate of house (in metres). Scaling in metres is obtained by multiplying the original coordinates by 2.5 (see details in Neal and Roberts (2004))

y.loc

y coordinate of house (in metres). See x.loc above

tPRO

exact time of onset of prodromal symptoms (relative to start of outbreak)

tERU

exact time of onset of rash (relative to start of outbreak)

tDEAD

time of death (relative to start of outbreak) (NA implies recovered)

tR

imputed time when individual entered into recovery

tI

imputed time when individual was infected

tBORN

Imputed time when individual was born. (Only for hagelloch_aug_births

An object of class agents_df (inherits from agents_df, data.frame) with 188 rows and 26 columns.

An object of class agents_df (inherits from data.frame) with 193 rows and 27 columns.

Source

https://rdrr.io/rforge/surveillance/man/hagelloch.html

Examples

## show first few cases
head(hagelloch_raw); head(hagelloch_raw2)

skgallagher/EpiCompare documentation built on Sept. 14, 2021, 5:45 a.m.