Ribosome profiling data analysis bioinformatics software tools

Genome-wide analyses of gene expression have so far focused on the abundance of mRNA species as measured either by microarray or, more recently, by RNA sequencing. However, neither approach provides information on protein synthesis, which is the true end point of gene…

Ribo-seq analysis steps

G T A T C G C T A
altORFev
Web
Desktop

altORFev altORF evaluator

Predicts alternative open reading frames within eukaryotic mRNA translated by a…

Predicts alternative open reading frames within eukaryotic mRNA translated by a conventional linear scanning mechanism and its modifications (leaky scanning, reinitiation). altORFev reveals…

G T A T C G C T A
systemPipeR
Desktop

systemPipeR

An extensible environment for both building and running end-to-end analysis…

An extensible environment for both building and running end-to-end analysis workflows with automated report generation for a wide range of next-generation sequencing (NGS) applications. Its unique…

G T A T C G C T A
Ribosome…
Desktop

Ribosome profiling analysis framework

A dedicated pipeline to identify translation initiation sites (TISs). Ribosome…

A dedicated pipeline to identify translation initiation sites (TISs). Ribosome profiling analysis framework features alignment, triplet periodicity analysis, detecting translation initiation sites…

G T A T C G C T A
PROTEOFORMER
Desktop
Web

PROTEOFORMER

A proteogenomic pipeline that delineates true in vivo proteoforms and generates…

A proteogenomic pipeline that delineates true in vivo proteoforms and generates a protein sequence search space for peptide to MS/MS matching. PROTEOFORMER can be combined with canonical protein…

G T A T C G C T A
RiboGalaxy
Web

RiboGalaxy

A freely available Galaxy-based web server for processing and analysing…

A freely available Galaxy-based web server for processing and analysing ribosome profiling data with the visualization functionality provided by GWIPS-viz. RiboGalaxy offers researchers a suite of…

G T A T C G C T A
riboviz
Web
Desktop

riboviz

Allows convenient exploration and analysis of riboseq datasets. riboviz…

Allows convenient exploration and analysis of riboseq datasets. riboviz consists of a comprehensive and flexible backend analysis pipeline that allows the user to analyze their private unpublished…

G T A T C G C T A
riboSeqR
Desktop

riboSeqR

Allows users to analyses sequencing data from ribosome profiling experiments.…

Allows users to analyses sequencing data from ribosome profiling experiments. riboSeqR provides a set of methods for parsing ribosomal profiling data from multiple samples, aligning to coding…

G T A T C G C T A
RiboTools
Web

RiboTools

A Galaxy toolbox for the analysis of ribosome profiling (Ribo-seq) data. It can…

A Galaxy toolbox for the analysis of ribosome profiling (Ribo-seq) data. It can be used to detect translational ambiguities, stop codon readthrough events and codon occupancy. It provides a large…

Related Websites
Information

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.