<!-- README.md is generated from README.Rmd. Please edit that file --> # HybridExpress <!-- badges: start --> [](https://github.com/almeidasilvaf/HybridExpress/issues) [](https://lifecycle.r-lib.org/articles/stages.html#experimental) [](https://github.com/almeidasilvaf/HybridExpress/actions/workflows/check-bioc.yml) [](https://app.codecov.io/gh/almeidasilvaf/HybridExpress?branch=devel) <!-- badges: end --> The goal of `HybridExpress` is to … ## Installation instructions Get the latest stable `R` release from [CRAN](http://cran.r-project.org/). Then install `HybridExpress` from [Bioconductor](http://bioconductor.org/) using the following code: ``` r if (!requireNamespace("BiocManager", quietly = TRUE)) { install.packages("BiocManager") } BiocManager::install("HybridExpress") ``` And the development version from [GitHub](https://github.com/almeidasilvaf/HybridExpress) with: ``` r BiocManager::install("almeidasilvaf/HybridExpress") ``` ## Citation Below is the citation output from using `citation('HybridExpress')` in R. Please run this yourself to check for any updates on how to cite **HybridExpress**. ``` r print(citation('HybridExpress'), bibtex = TRUE) ``` Please note that the `HybridExpress` was only made possible thanks to many other R and bioinformatics software authors, which are cited either in the vignettes and/or the paper(s) describing this package. ## Code of Conduct Please note that the `HybridExpress` project is released with a [Contributor Code of Conduct](http://bioconductor.org/about/code-of-conduct/). By contributing to this project, you agree to abide by its terms. ## Development tools - Continuous code testing is possible thanks to [GitHub actions](https://www.tidyverse.org/blog/2020/04/usethis-1-6-0/) through *[usethis](https://CRAN.R-project.org/package=usethis)*, *[remotes](https://CRAN.R-project.org/package=remotes)*, and *[rcmdcheck](https://CRAN.R-project.org/package=rcmdcheck)* customized to use [Bioconductor’s docker containers](https://www.bioconductor.org/help/docker/) and *[BiocCheck](https://bioconductor.org/packages/3.17/BiocCheck)*. - Code coverage assessment is possible thanks to [codecov](https://codecov.io/gh) and *[covr](https://CRAN.R-project.org/package=covr)*. - The [documentation website](http://almeidasilvaf.github.io/HybridExpress) is automatically updated thanks to *[pkgdown](https://CRAN.R-project.org/package=pkgdown)*. - The code is styled automatically thanks to *[styler](https://CRAN.R-project.org/package=styler)*. - The documentation is formatted thanks to *[devtools](https://CRAN.R-project.org/package=devtools)* and *[roxygen2](https://CRAN.R-project.org/package=roxygen2)*. This package was developed using *[biocthis](https://bioconductor.org/packages/3.17/biocthis)*.