Rxivist logo

A powerful and flexible tool for rapid and accurate differential expression and alternative splicing analysis of RNA-seq data for biologists

By Wenbin Guo, Nikoleta Tzioutziou, Gordon Stephen, Iain Milne, Cristiane Calixto, Robbie Waugh, John WS Brown, Runxuan Zhang

Posted 31 May 2019
bioRxiv DOI: 10.1101/656686

RNA-seq analysis of gene expression and alternative splicing should be routine and robust but is often a bottleneck for biologists because of reliance on specialized bioinformatics skills. Thus, we have developed “ 3D RNA-seq ”, an R shiny App and web based service which provides an easy-to-use, flexible and powerful tool for three-component analysis of RNA-seq data: Differential Expression, Differential Alternative Splicing and Differential Transcript Usage. 3D RNA-seq integrates state-of-the-art, highly rated differential expression analysis tools and adopts best practice for RNA-seq analysis. It operates through a user-friendly graphical interface, can handle complex experimental designs, allows setting of statistical parameters, tracks results through graphics and tables, and generates figures and a comprehensive report that will guarantee reproducibility. 3D RNA-seq can be applied to any species and is designed to be run by biologists with no programming skills (or by bioinformaticians) allowing lab scientists to perform rapid and accurate analysis of RNA-seq data. ### Competing Interest Statement The authors have declared no competing interest.

Download data

  • Downloaded 3,375 times
  • Download rankings, all-time:
    • Site-wide: 4,420
    • In bioinformatics: 411
  • Year to date:
    • Site-wide: 17,981
  • Since beginning of last month:
    • Site-wide: 46,405

Altmetric data

Downloads over time

Distribution of downloads per paper, site-wide