RiboSeeker: An End-to-End Package for Ribosome Profiling Data Analysis

Ribosome profiling is a technology for determining translation activity by sequencing ribosome protected mRNA fragments. We developed RiboSeeker, an end-to-end package for ribosome profiling data analysis. RiboSeeker has two components: Ribomake and RiboSeeker:

• Ribomake: a Snakemake workflow to process ribosome profiling data from raw reads;
• RiboSeeker: an R package for further data analysis from aligned reads;

Please refer to Ribomake page for more details about the installation process and usage. This repository focuses on the R package to process aligned Ribo- and RNA-seq reads.

Installation

You can install the RiboSeeker R package from GitHub with

if (!requireNamespace('devtools', quietly = TRUE)) {
  install.packages('devtools')
}
devtools::install_github('nzhang89/RiboSeeker')

Usage

We provide a simple tutorial to demonstrate the basic usage of the RiboSeeker R package.