Install packages from Bioconductor, CRAN, or a Git remote

install(
  pkgs,
  configureArgs = getOption("configure.args"),
  configureVars = getOption("configure.vars"),
  dependencies = TRUE,
  lib = .libPaths()[[1L]],
  type = getOption("pkgType"),
  reinstall = TRUE
)

Arguments

pkgs	`character`. Package names to install. By default, strings are passed to `BiocManager::install()`. Special cases: Package tarball files and remote URLs (i.e. from CRAN or Bioconductor) are supported. Strings matching "USER/REPO" are treated as GitHub repositories, and installed using `remotes::install_github()`. Strings ending with ".git" are treated as Git repositories, and installed using `remotes::install_git()`.
configureArgs, configureVars	`character` or named `list`. Used only for source installs. If a character vector with no names is supplied, the elements are concatenated into a single string (separated by a space) and used as the value for the `--configure-args` or `configure-vars` flag in the call to `R CMD INSTALL`. If the character vector has names, these are assumed to identify values for `--configure-args` or `--configure-vars` for individual packages. This allows one to specify settings for an entire collection of packages which will be used if any of those packages are to be installed. A named list can be used also to the same effect, and that allows multi-element character strings for each package which are concatenated to a single string to be used as the value for `--configure-args` and/or `--configure-vars`.
dependencies	`logical(1)`, `character`, or `NA`. `TRUE`/`FALSE` indicating whether to install uninstalled packages which these packages depend on/link to/import/suggest. Can pass a `character` vector, a subset of `c("Depends", "Imports", " LinkingTo", "Suggests", "Enhances")`. Can pass `NA`, the default for `install.packages()`, which means `c("Depends", "Imports", "LinkingTo")`.
lib	`character`. Destination library directory paths. Defaults to the first element of `.libPaths()`.
type	`character(1)`. Type of package to download and install. `"source"` is recommended by default, but `"binary"` can be used on macOS or Windows to install pre-built binaries from CRAN or Bioconductor. Note that installing from source requires the correct GCC and GNU Fortran binaries to be installed, and Apple LLVM/Clang compilers should not be used on macOS. Refer to macOS development tools for details.
reinstall	`logical(1)`. Force reinstallation of any existing packages.

Value

Invisible character. Package names defined in the pkgs argument.

Note

Updated 2020-12-03.

Examples

## > install(pkgs = c("DESeq2", "edgeR"))