RiboFlow, RiboR and RiboPy: an ecosystem for analyzing ribosome profiling data at read length resolution.

ABSTRACT: SUMMARY:Ribosome occupancy measurements enable protein abundance estimation and infer mechanisms of translation. Recent studies have revealed that sequence read lengths in ribosome profiling data are highly variable and carry critical information. Consequently, data analyses require the computation and storage of multiple metrics for a wide range of ribosome footprint lengths. We developed a software ecosystem including a new efficient binary file format named 'ribo'. Ribo files store all essential data grouped by ribosome footprint lengths. Users can assemble ribo files using our RiboFlow pipeline that processes raw ribosomal profiling sequencing data. RiboFlow is highly portable and customizable across a large number of computational environments with built-in capabilities for paralleliz

SUBMITTER: Ozadam H 

PROVIDER: S-EPMC7203755 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature