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limorhyde2 is an approach to analyze rhythmic, genome-scale data in a way that focuses on effect sizes. For a detailed description oflimorhyde2 along with examples showing its utility for transcriptome data, please check out thepaper.

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

1. InstallBiocManager.

   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:

   • 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/')

See the examples and detailed guidance in thereference documentation.