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incidence (version 1.5.4)

Compute, Handle, Plot and Model Incidence of Dated Events

Description

Provides functions and classes to compute, handle and visualise incidence from dated events for a defined time interval. Dates can be provided in various standard formats. The class 'incidence' is used to store computed incidence and can be easily manipulated, subsetted, and plotted. In addition, log-linear models can be fitted to 'incidence' objects using 'fit'. This package is part of the RECON () toolkit for outbreak analysis.

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Version

Install

install.packages('incidence')

Monthly Downloads

2,036

Version

1.5.4

License

MIT + file LICENSE

Maintainer

Zhian N. Kamvar

Last Published

January 15th, 2019

Functions in incidence (1.5.4)

group_names

extract and set group names
pool

Pool 'incidence' across groups
incidence

Compute incidence of events from a vector of dates.
subset.incidence

Subsetting 'incidence' objects
incidence_pal1

Color palettes used in incidence
find_peak

Find the peak date of an incidence curve
plot.incidence

Plot function for incidence objects
fit

Fit exponential models to incidence data
get_fit

Accessors for incidence_fit objects
estimate_peak

Estimate the peak date of an incidence curve using bootstrap
cumulate

Compute cumulative 'incidence'
as.data.frame.incidence

Conversion of incidence objects
bootstrap

Bootstrap incidence time series
get_dates

Retrieve dates from an incidence object
dim.incidence

Access various elements of an incidence object
get_counts

Get counts from an incidence object