Name Mode Size
.github 040000
R 040000
docs 040000
inst 040000
man-roxygen 040000
man 040000
tests 040000
vignettes 040000
.Rbuildignore 100644 0 kb
.gitignore 100644 0 kb
DESCRIPTION 100644 2 kb
LICENSE 100644 9 kb
NAMESPACE 100644 1 kb
NEWS 100644 2 kb
README.Rmd 100644 3 kb 100644 3 kb
_pkgdown.yml 100644 0 kb
codecov.yml 100644 0 kb
# Microbiome data simulation with miaSim <!-- badges: start --> [![Codecov test coverage](]( [![Gitter](]( [![Watch on GitHub][github-watch-badge]][github-watch] [![Star on GitHub][github-star-badge]][github-star] [![R-CMD-check](]( <!-- badges: end --> ## miaSim This miaSim R/Bioconductor package can be used to simulate (longitudinal) data for the benchmarking and analysis of quantitative models of microbial communities. For installation and use, see the [Getting started]( page. The package [homepage]( provides further tutorials and references for the [implemented models](, which include Hubbell's neutral model, the generalized Lotka-Volterra model, and the self-organised instability model. The package is based on the `(Tree)SummarizedExperiment` data container. ### miaSimShiny The accompanying [miaSimShiny]( package allows users to explore the parameter space of their models in real-time in an intuitive graphical interface. You can experiment with miaSimShiny [online]( ### Contributions and acknowledgments You can find us online from [Gitter]( Contributions are very welcome through issues and pull requests at the [development site]( We follow a git flow kind of approach. Development version should be done against the `main` branch and then merged to `release` for release. ( We are grateful to all [contributors]( ### Citing the package **Kindly cite this work** as follows: Gao _et al._ (2023). Methods in Ecology and Evolution. DOI: [10.1111/2041-210X.14129]( For citation details, see R command `citation("miaSim")`. # Code of conduct Please note that the project is released with a [Bioconductor Code of Conduct]( By contributing to this project, you agree to abide by its terms. [github-watch-badge]: [github-watch]: [github-star-badge]: [github-star]: