subset.SeroData: Creates a subset of a serological survey

In nathoze/Rsero: Estimate the annual force of infection using serological data

Creates a subset of a serological survey

Description

This function creates a serological survey of the class SeroData.

Usage

## S3 method for class 'SeroData'
subset(data, sub = seq(1, data$N), loc = NULL, category = NULL)

Arguments

sub	Used in the subset function. A list of the indices of the individuals to be considered in the new SeroData object.
loc	Used in the subset function. A list of the location of the individuals to be considered in the new SeroData object.
sex	An optional character factor defining the sex of the individuals. It can be a single chain of characters or a vector of the same size as the number of sampled individuals. Default = NULL.
...	Additional arguments (not used).

Value

A list with the class SeroData, which contains the following items:

• age: A vector of integers containing the age of the sampled individuals at the time of the latest sampling, of length N.

• age_at_sampling: A vector of integers containing the age of the sampled individuals at the time of sampling, of length N.

• Y: A vector of seropositivity status, of length N.

• N: The number of individuals considered.

• A: The maximal age.

• NGroups: The total number of age groups.

• sampling_year: A vector of sampling years, of length N.

• location: A vector of the sampling location, of length N.

• sex: A vector of the sex of each individual, of length N.

Author(s)

Nathanael Hoze [e-mail]

Examples

## A very simple example of a serological survey with three individuals: 
data = SeroData(age_at_sampling = c(10,32,24), Y=c(0,1,1), max_age = 50, age_cats = 1, sampling_year = 2017)

seroprevalence(data = data)
data2 = subset(data,c(1,3))

# add example with subset(data, location)

nathoze/Rsero documentation built on Oct. 22, 2024, 6:43 p.m.