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socialmixr
is an R package to derive social mixing matrices from
survey data.
The package can be installed using
install.packages("socialmixr")The current development version can be installed using the
remotes package
remotes::install_github("epiforecasts/socialmixr")Contact matrices are computed through a small pipeline of composable functions: subsetting the survey, assigning age groups, optionally weighing participants, and computing the matrix. A minimal example using the included POLYMOD data:
library(socialmixr)
data(polymod)
polymod[country == "United Kingdom"] |>
assign_age_groups(age_limits = c(0, 1, 5, 15)) |>
compute_matrix()Post-processing functions symmetrise(),
split_matrix() and per_capita() can be piped
after compute_matrix() to enforce symmetry, decompose the
matrix, or convert to per-capita contact rates.
For more on how to use the socialmixr package, see the introduction vignette.
All contributions to this project are gratefully acknowledged using
the allcontributors
package following the allcontributors specification.
Contributions of any kind are welcome!
sbfnk, Bisaloo, lwillem, njtierney, alxsrobert, Degoot-AM, pearsonca, jarvisc1, jamesmbaazam, LloydChapman, mariabnd, ukhsa-tt
bastistician, BlackEdder, Pinzo1, florpi, cchauve, thutran, dlaydon, deusthindwa, krivit, linyang17, cliu822, TimTaylor, NaomiWaterlow, aakhmetz, adamkucharski, chitrams, IsaacStopard, avallecam, maishaoshao, FrancescoBonacina, lucy-gf
vikkytom, bahadzie, joshwlambert
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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