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Social mixing matrices for infectious disease modelling in R

socialmixr is an R package to derive social mixing matrices from survey data.

Installation

The package can be installed using

install.packages("socialmixr")

The current development version can be installed using the remotes package

remotes::install_github("sbfnk/socialmixr")

Documentation

For information on how to use the socialmixr package, see the vignette.

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Version

Install

install.packages('socialmixr')

Monthly Downloads

603

Version

0.1.6

License

GPL-3

Maintainer

Sebastian Funk

Last Published

January 10th, 2020

Functions in socialmixr (0.1.6)

wpp_age

Get age-specific population data according to the World Population Prospects 2015 edition

survey_countries

List all countries contained in a survey

survey

Contact survey

pop_age

Change age groups in population data

limits_to_agegroups

Convert lower age limits to age groups.

reduce_agegroups

Reduce the number of age groups given a broader set of limits

wpp_countries

List all countries and regions for which socialmixr has population data

zenodo_available

Check if the Zenodo repository is available

polymod

Social contact data from 8 European countries

check

Check contact survey data

check_zenodo

Check the status of the Zenodo repository

cite

Citation for a survey

contact_matrix

Generate a contact matrix from diary survey data

get_survey

Get a survey, either from its Zenodo repository, a set of files, or a survey variable

ensure_zenodo_available

Helper function to ensure Zenodo can be accessed

list_surveys

List all surveys available for download

clean

Clean contact survey data