extract_obs_metadata: Extract observation metadata

In seabbs/epinowcast: Flexible Hierarchical Nowcasting

Extract observation metadata

Description

This function extracts metadata from the provided dataset to be used in the observation model.

Usage

extract_obs_metadata(new_confirm, observation_indicator = NULL)

Arguments

new_confirm	A data.table containing the columns: "reference_date", "delay", ".group", "new_confirm", and "max_obs_delay". As produced by enw_preprocess_data() in the new_confirm output with the addition of the "max_obs_delay" column as produced by add_max_observed_delay().
observation_indicator	A character string specifying the column name in new_confirm that indicates whether an observation is observed or not. This column should be a logical vector. If NULL (default), all observations are considered observed.

Value

A list containing:

• st: time index of each snapshot (snapshot time).

• ts: snapshot index by time and group.

• sl: number of reported observations per snapshot (snapshot length).

• csl: cumulative version of sl.

• lsl: number of consecutive reported observations per snapshot accounting for missing data.

• clsl: cumulative version of lsl.

• nsl: number of observed observations per snapshot (snapshot length).

• cnsl: cumulative version of nsl.

• sg: group index of each snapshot (snapshot group).

See Also

Helper functions for model modules add_max_observed_delay(), add_pmfs(), convolution_matrix(), enw_reference_by_report(), enw_reps_with_complete_refs(), extract_sparse_matrix(), latest_obs_as_matrix(), simulate_double_censored_pmf()

seabbs/epinowcast documentation built on Feb. 3, 2025, 9:56 p.m.