Analysis and Visualization of Ribosome Profiling Data

A list of bioinformatic tools for working with Ribo-Seq data

Analysis pipeline for Ribosome footprinting data

Pipeline for the analysis of ribosome profiling, or Ribo-seq (also named ribosome footprinting) data.

A Nextflow DSL2 pipeline to perform ribo-seq data analysis and comprehensive quality control.

A tool for accurately detecting actively translating ORFs from Ribo-seq data

Ribo-seq TIS Hunter, predicting translation initiation sites and ORFs using riboseq data

RNA-seq aligner

SortMeRNA: next-generation sequence filtering and alignment tool

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

Tools for handling Unique Molecular Identifiers in NGS data sets

Cutadapt removes adapter sequences from sequencing reads

Course homepages for some of the courses given at SciLifeLab

RiboDiff: Tool to detect changes in translational efficiency based on ribosome footprinting data

Differential expression of RNA-seq data using the Negative Binomial

A fast and sensitive gapped read aligner

A quality control analysis tool for high throughput sequencing data

Read trimming tool for Illumina NGS data.