limorhyde (linear models for rhythmicity, design) is an R package that enables differential analysis of circadian transcriptome data using state-of-the-art methods for differential expression.
First add the hugheylab repository to your repos. There are multiple ways to do this.
If you use RStudio, go to Tools -> Global Options... -> Packages -> Add... (under Secondary repositories), then enter the following values.
- Name: hugheylab
- Url: https://hugheylab.github.io/drat/
You only have to do this once.
Alternatively, you can enter the following command each time you want to install or update the package.
options(repos = c(getOption('repos'), 'https://hugheylab.github.io/drat/'))
Now you can install the package.
install.packages('limorhyde', type = 'source')
You can update the package using
You can also use a pre-built docker image, which has all dependencies installed.
docker pull hugheylab/hugheyverse
See the vignette and the documentation.