limorhyde2 is an approach to analyze rhythmic, genome-scale data in a way that focuses on effect sizes. For a detailed description of limorhyde2 along with examples showing its utility on data from one or more conditions, please wait for the preprint.

## Installation

### Option 1: CRAN

if (!requireNamespace('BiocManager', quietly = TRUE))
install.packages('BiocManager')
BiocManager::install(c('DESeq2', 'limma'))
install.packages('limorhyde2')

### Option 2: Hughey Lab Drat Repository

1. Install BiocManager.

if (!requireNamespace('BiocManager', quietly = TRUE))
install.packages('BiocManager')
2. If you use RStudio, go to Tools → Global Options… → Packages → Add… (under Secondary repositories), then enter:

You only have to do this once. Then you can install or update the package by entering:

BiocManager::install('limorhyde2')

Alternatively, you can install or update the package by entering:

BiocManager::install('limorhyde2', site_repository = 'https://hugheylab.github.io/drat/')

## Usage

See the examples and detailed guidance in the reference documentation.