README.Rmd

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# BiocManager

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## Overview

The `BiocManager` package, as the modern successor package to `BiocInstaller`,
allows users to install and manage packages from the _[Bioconductor][1]_
project. Bioconductor focuses on the statistical analysis and comprehension of
high-throughput genomic data.

Current _Bioconductor_ packages are available on a 'release' version intended
for every-day use, and a 'devel' version where new features are continually
introduced. A new release version is created every six months. Using the
`BiocManager` package helps users accurately install packages from the
appropriate release.

* `available()` shows all packages associated with a search pattern
* `install()` installs and/or updates packages either CRAN or Bioconductor
* `repositories()` shows all package repository URL endpoints
* `valid()` checks and returns packages that are out-of-date or too new
* `version()` returns the current Bioconductor version number

## Installation

```{r, eval = FALSE}
install.packages("BiocManager")
```

## Usage

```{r, message=FALSE}
library(BiocManager)

version()

install(c("GenomicRanges", "SummarizedExperiment"))

valid()
```

## More information

Please see the package vignette for more detailed information such as changing
Bioconductor version, offline use, and other advanced usage.

## Getting help

To report apparent bugs, create a minimal and reproducible example on
[github][2].

[1]: https://bioconductor.org
[2]: https://github.com/Bioconductor/BiocManager/issues