Download and installation¶

Download¶

The latest stable release of alakazam can be downloaded from CRAN or Bitbucket.

Installing Released Versions¶

The simplest way to install alakazam is via CRAN:

install.packages("alakazam")

Downloaded source builds from Bitbucket may be installed in the usual way:

install.packages("alakazam_x.y.z.tar.gz", repos = NULL, type = "source")

If you have any trouble installing the package, it may be due to the Bioconductor dependencies. You can run the following command to see what other packages may be needed:

available.packages()["alakazam", "Imports"]

Alternatively, you can use Bioconductor’s install function:

install.packages("BiocManager")
BiocManager::install("alakazam")

Building Development Versions¶

To build from the source code, first install the build dependencies:

install.packages(c("devtools", "roxygen2", "testthat", "knitr", "rmarkdown", "Rcpp"))

To install the latest development code via devtools:

library(devtools)
install_bitbucket("kleinstein/alakazam@master")

Note, using install_bitbucket will not build the documentation. To generate the documentation, clone the repository and build as normal using devtools, roxygen and knitr:

library(devtools)
install_deps()
document()
build()
install()