# illuminaio: Parsing Illumina Microarray Output Files ## Installation R package illuminaio is available on [Bioconductor](https://www.bioconductor.org/packages/devel/bioc/html/illuminaio.html) and can be installed in R as: ```r install.packages("BiocManager") BiocManager::install("illuminaio") ``` ### Pre-release version To install the pre-release version that is available in Git branch `develop` on GitHub, use: ```r remotes::install_github("HenrikBengtsson/illuminaio@develop") ``` This will install the package from source. Because of this and because this package also compiles native code, Windows users need to have [Rtools](https://cran.r-project.org/bin/windows/Rtools/) installed and macOS users need to have [Xcode](https://developer.apple.com/xcode/) installed. ## Contributions This Git repository uses the [Git Flow](http://nvie.com/posts/a-successful-git-branching-model/) branching model (the [`git flow`](https://github.com/petervanderdoes/gitflow-avh) extension is useful for this). The [`develop`](https://github.com/HenrikBengtsson/illuminaio/tree/develop) branch contains the latest contributions and other code that will appear in the next release, and the [`master`](https://github.com/HenrikBengtsson/illuminaio) branch contains the code of the latest release, which is exactly what is currently on [Bioconductor](https://www.bioconductor.org/packages/devel/bioc/html/illuminaio.html). Contributing to this package is easy. Just send a [pull request](https://help.github.com/articles/using-pull-requests/). When you send your PR, make sure `develop` is the destination branch on the [illuminaio repository](https://github.com/HenrikBengtsson/illuminaio). Your PR should pass `R CMD check --as-cran`, which will also be checked by <a href="https://travis-ci.org/HenrikBengtsson/illuminaio">Travis CI</a> and <a href="https://ci.appveyor.com/project/HenrikBengtsson/illuminaio">AppVeyor CI</a> when the PR is submitted. ## Software status | Resource: | Bioconductor | Travis CI | Appveyor | | ------------- | ------------------- | --------------- | ---------------- | | _Platforms:_ | _Multiple_ | _Linux & macOS_ | _Windows_ | | R CMD check | <a href="https://bioconductor.org/checkResults/release/bioc-LATEST/illuminaio/"><img border="0" src="https://bioconductor.org/shields/build/release/bioc/illuminaio.svg" alt="Build status"></a> (release)</br><a href="https://bioconductor.org/checkResults/devel/bioc-LATEST/illuminaio/"><img border="0" src="https://bioconductor.org/shields/build/devel/bioc/illuminaio.svg" alt="Build status"></a> (devel) | <a href="https://travis-ci.org/HenrikBengtsson/illuminaio"><img src="https://travis-ci.org/HenrikBengtsson/illuminaio.svg" alt="Build status"></a> | <a href="https://ci.appveyor.com/project/HenrikBengtsson/illuminaio"><img src="https://ci.appveyor.com/api/projects/status/github/HenrikBengtsson/illuminaio?svg=true" alt="Build status"></a> | | Test coverage | | <a href="https://codecov.io/gh/HenrikBengtsson/illuminaio"><img src="https://codecov.io/gh/HenrikBengtsson/illuminaio/branch/develop/graph/badge.svg" alt="Coverage Status"/></a> | |