.validate_delay_and_triangle

Validate triangle to nowcast and delay PMF together
Various checks to make sure that the reporting triangle and the delay PMF
passed in to <code>apply_delay()</code> are formatted properly and compatible.

internal

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

.validate_delay_and_triangle function

<dl><dt>triangle</dt>
<dd>Matrix of values with rows indicating the time points and
columns indicating the delays.</dd>
<dt>delay_pmf</dt>
<dd>Vector of length of the number of delays indicating the
probability of a case being reported on a given delay.</dd></dl>

Arguments

Validate triangle to nowcast and delay PMF together
Various checks to make sure that the reporting triangle  and the delay PMF
passed in to apply_delay() are formatted properly and compatible. — .validate_delay_and_triangle

<dl>

<dt>triangle</dt>
<dd>Matrix of values with rows indicating the time points and
columns indicating the delays.</dd>


<dt>delay_pmf</dt>
<dd>Vector of length of the number of delays indicating the
probability of a case being reported on a given delay.</dd>

</dl>

Validate triangle to nowcast and delay PMF together
Various checks to make sure that the reporting triangle and the delay PMF
passed in to <code>apply_delay()</code> are formatted properly and compatible.

.validate_delay_and_triangle: Validate triangle to nowcast and delay PMF together Various checks to make sure that the reporting triangle and the delay PMF passed in to `apply_delay()` are formatted properly and compatible.

Description

Usage

Value

Arguments