germany_covid19_hosp

Incident COVID-19 hospitalisations indexed by the date of positive test
(reference date) and report date from Germany in 2021 and 2022.

datasets

Nowcasting right-truncated epidemiological data is critical
for timely public health decision-making, as reporting delays can create
misleading impressions of declining trends in recent data. This package
provides nowcasting methods based on using empirical
delay distributions and uncertainty from past performance. It is also designed
to be used as a baseline method for developers of new nowcasting methods.
For more details on the performance of the method(s) in this package applied
to case studies of COVID-19 and norovirus, see our recent paper at
<https://wellcomeopenresearch.org/articles/10-614>. The package supports
standard data frame inputs with reference date, report date, and
count columns, as well as the direct use of reporting triangles, and is
compatible with 'epinowcast' objects. Alongside
an opinionated default workflow, it has a low-level pipe-friendly modular
interface, allowing context-specific workflows. It can accommodate a wide
spectrum of reporting schedules, including mixed patterns of reference and
reporting (daily-weekly, weekly-daily). It also supports sharing delay
distributions and uncertainty estimates between strata,
as well as custom uncertainty models and delay estimation methods.

Kaitlyn Johnson

baselinenowcast

Baseline Nowcasting for Right-Truncated Epidemiological Data

Emily Tyszka

Johannes Bracher

Sebastian Funk

Sam Abbott

Tim Taylor

germany_covid19_hosp function

A data.frame with 140,630 rows and 6 columns.<dl>
<dt>reference_date</dt>
<dd>Date of first positive COVID-19 test formatted
in ISO8601 standards as YYYY-MM-DD.</dd><dt>location</dt>
<dd>Character string indicating the location of the case
counts</dd><dt>age_group</dt>
<dd>Character string indicating the age group of the case
counts.</dd><dt>delay</dt>
<dd>Integer specifying the delay, in days, between the reference
date and the report date</dd><dt>count</dt>
<dd>Integer indicating the number of cases indexed by reference
and report date.</dd><dt>report_date</dt>
<dd>Date of case report, formatted in ISO8601 standards as
YYYY-MM-DD.</dd>
</dl>

Format

Incident COVID-19 hospitalisations indexed by the date of positive test
(reference date) and report date from Germany in 2021 and 2022. — germany_covid19_hosp

A data.frame with 140,630 rows and 6 columns.<dl>
<dt>reference_date</dt>
<dd>Date of first positive COVID-19 test formatted
in ISO8601 standards as YYYY-MM-DD.</dd>

<dt>location</dt>
<dd>Character string indicating the location of the case
counts</dd>

<dt>age_group</dt>
<dd>Character string indicating the age group of the case
counts.</dd>

<dt>delay</dt>
<dd>Integer specifying the delay, in days, between the reference
date and the report date</dd>

<dt>count</dt>
<dd>Integer indicating the number of cases indexed by reference
and report date.</dd>

<dt>report_date</dt>
<dd>Date of case report, formatted in ISO8601 standards as
YYYY-MM-DD.</dd>


</dl>

germany_covid19_hosp: Incident COVID-19 hospitalisations indexed by the date of positive test (reference date) and report date from Germany in 2021 and 2022.

Description

Usage

Arguments

Format

See Also