Description Usage Arguments Value Author(s)

These functions are designed for plotting `earlyR`

objects, output by
the function `get_R`

. It can plot either the likelihood of R
values, or the force of infection over time (see argument `type`

). For
`points`

, the latter is used.

1 2 3 4 5 |

`x` |
A |

`type` |
The type of graphic to be generated, matching either "R" or "lamdbas"; "R" will plot the likelihood of R values; "lambdas" will plot the force of infection over time; see 'scale' argument to interprete the force of infection. |

`scale` |
A numeric value indicating the total number of new cases expected over the time period of the lambdas, or a recognised 'character' string; lambdas will be scaled to correspond to the number of expected cases every day; defaults to 'ml', which tells function to use the maximum likelihood estimate of *R* multiplied by the number of infectious cases |

`...` |
Further arguments to be passed to other methods; for the plot of *R*, '...' is passed to 'ggplot2::geom_line()'; for the plot of *lambdas*, '...' is passed to 'ggplot2::geom_bar()'. |

A 'ggplot2' object.

if (require(incidence))

## example: onsets on days 1, 5, 6 and 12; estimation on day 24 onset <- c(1, 5, 6, 12) x <- incidence(onset, last_date = 24) x

res <- get_R(x, disease = "ebola") res plot(res) plot(res, "lambdas")

Thibaut Jombart thibautjombart@gmail.com

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.