fake_outbreak: Small simulated outbreak

In reconhub/outbreaker2: Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data

Small simulated outbreak

Description

This dataset is a small (30 cases) simulated outbreak originally used to illustrate outbreaker, and used for the same purposes in outbreaker2. This list contains the following:

Usage

fake_outbreak

Format

An object of class list of length 6.

Details

• $onset: A vector of integers representing dates of onset.

• $sample: A vector of integers representing the dates of isolation.

• $dna: A DNAbin matrix of pathogen genome sequences.

• $w: A numeric vector giving the empirical distribution of the generation time.

• $ances: A vector of integers indicating, for each case, the true infectors. NA represents imported cases.

Author(s)

Thibaut Jombart [e-mail]

Examples

names(fake_outbreak)
fake_outbreak

reconhub/outbreaker2 documentation built on Sept. 25, 2024, 5:45 p.m.