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bioRxiv · 10.1101/2022.09.23.509222

R2Dtool: Positional interpretation of RNA-centric information in the context of transcriptomic and genomic features

Sethi, A. J.·Acera Mateos, P.·Shirokikh, N. E.·Eyras, E.
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Abstract

Long-read RNA sequencing enables the mapping of RNA modifications, structures, and protein-interaction sites at the resolution of individual transcript isoforms. To understand the functions of these RNA features, it is critical to analyze them in the context of transcriptomic and genomic annotations, such as open reading frames and splice junctions. To enable this, we have developed R2Dtool, a bioinformatics tool that integrates transcript-mapped information with transcript and genome annotations, allowing for the isoform-resolved analytics and graphical representation of RNA features in their genomic context. We illustrate R2Dtools capability to integrate and expedite RNA feature analysis using epitranscriptomics data. R2Dtool facilitates the comprehensive analysis and interpretation of alternative transcript isoforms. R2Dtool is freely available under the MIT license at: https://github.com/comprna/R2Dtool.

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Sethi, A. J., Acera Mateos, P., Shirokikh, N. E., Eyras, E.. 2022-09-24. R2Dtool: Positional interpretation of RNA-centric information in the context of transcriptomic and genomic features. https://doi.org/10.1101/2022.09.23.509222

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