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Data preprocessing software tools | Ribosome profiling data analysis

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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…

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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…

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RSCU_RS
Desktop

RSCU_RS Relative Synonymous Codon Usage for Ribo-Seq data

Computes a precise and direct measure of codon usage bias (CUB). RSCU_RS is a…

Computes a precise and direct measure of codon usage bias (CUB). RSCU_RS is a method based on Ribosome sequencing (Ribo-seq) that permits to directly compute CUB from all translated genes.

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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…

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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…

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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…

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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…

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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…

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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…

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