new_reporting_triangle

Creates a new reporting_triangle object from a matrix.

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

new_reporting_triangle function

<dl><dt>reporting_triangle_matrix</dt>
<dd>Matrix of reporting triangle where rows
are reference times, columns are delays, and entries are incident counts.</dd>
<dt>reference_dates</dt>
<dd>Vector of Date objects indicating the reference dates
corresponding to each row of the matrix.</dd>
<dt>delays_unit</dt>
<dd>Character string specifying the temporal granularity of
the delays. Options are <code>"days"</code>, <code>"weeks"</code>, <code>"months"</code>, <code>"years"</code>.
Default is <code>"days"</code>.</dd></dl>

Arguments

Class constructor for reporting_triangle objects — new_reporting_triangle

<dl>

<dt>reporting_triangle_matrix</dt>
<dd>Matrix of reporting triangle where rows
are reference times, columns are delays, and entries are incident counts.</dd>


<dt>reference_dates</dt>
<dd>Vector of Date objects indicating the reference dates
corresponding to each row of the matrix.</dd>


<dt>delays_unit</dt>
<dd>Character string specifying the temporal granularity of
the delays. Options are <code>"days"</code>, <code>"weeks"</code>, <code>"months"</code>, <code>"years"</code>.
Default is <code>"days"</code>.</dd>

</dl>

new_reporting_triangle: Class constructor for `reporting_triangle` objects

Description

Usage

Value

Arguments

See Also