RiboGalaxy

RiboGalaxy processes and analyzes ribosome profiling (ribo-seq) data through multi-step alignment workflows, quality assessment, visualization, and differential translation expression analysis. It supports transcriptome-wide mapping of ribosome positions at sub-codon resolution.

Key Features:

• Ribo-seq Alignment Workflows: Implements multi-step alignment pipelines with predefined workflows for processing ribosome profiling datasets.
• Quality Assessment: Evaluates triplet periodicity and generates meta-gene ribosome profiles to assess data integrity.
• Differential Translation Analysis: Integrates the riboSeqR suite for differential translation expression analysis.
• Genome Browser Integration: Exports aligned ribo-seq data as custom tracks for visualization in GWIPS-viz and Trips-Viz browsers.
• Containerized Execution: Utilizes Singularity containers managed by Slurm with configuration via Ansible to ensure reproducible computational workflows.

Scientific Applications:

• Transcriptome-wide Translation Profiling: Enables sub-codon resolution analysis of ribosome occupancy, identification of translated regions, and investigation of mRNA sequence effects on local read density.

Methodology:

RiboGalaxy applies sequential alignment of ribo-seq reads, generates ribosome occupancy profiles, assesses triplet periodicity, constructs meta-gene profiles, and performs differential translation analysis using riboSeqR. Processed datasets are formatted for genome browser visualization and executed within containerized environments for reproducibility.