Basics of the OSCA book

This repository contains a Bioconductor package to deploy the Basics subbook of the Orchestrating Single-Cell Analysis book. Install all relevant packages used in the book with:

BiocManager::install(remotes::local_package_deps(dependencies=TRUE))

Building the book can be done by either running the usual bookdown invocation in inst/book:

bookdown::render_book("index.Rmd")

Or by R CMD build on the package itself to compile the book during the vignette build process.

To contribute reports, follow standard procedure: fork and PR. This requires updating of files in inst/rebook to support links from external packages. The updates are usually handled by the GitHub Action but can be done manually with:

rebook::updateDependencies("inst/book", path='DESCRIPTION', 
    extra=c("Rtsne", "RMTstat", "statmod", "GO.db", "mbkmeans"))
rebook::configureBook(prefix="Basic")