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 for transcriptome data, please check out the paper.
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
-
Install
BiocManager
.if (!requireNamespace('BiocManager', quietly = TRUE)) install.packages('BiocManager')
-
If you use RStudio, go to Tools → Global Options… → Packages → Add… (under Secondary repositories), then enter:
- Name: hugheylab
- Url: https://hugheylab.github.io/drat/
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.