CyVerse to provide free, open-source Polymarker pipeline for RNA-Seq analysis

As an international collaboration between hardware and middleware engineers at Earlham Institute, support staff in the Norwich Research Park Computing Infrastructure for Science (NRP CiS) team, University of Arizona, Texas Advanced Computing Centre and Cold Spring Harbor Labs, CyVerse UK provides free, large scale, computing facilities and data storage designed for life scientists.

CyVerse provides an intuitive web interface, Discovery Environment (DE), where scientists can upload data and run analyses. While this resource is hosted in the US, the DE can automatically run tools hosted in the CyVerse UK platform, giving geographical advantages to data access speed, analysis time, and data placement policy.

The Polymarker pipeline will soon also be available to scientists to create efficient SNP genome assays in wheat, together with a modified ‘Tuxedo suite’ app developed by the University of Liverpool which executes a series of pipelines for RNA-seq analysis. CyVerse UK’s robust virtualisation platform will also provide back-end data services and web hosting for the COPO and Grassroots Genomics projects.

All tools are available through the Discovery Environment (, full documentation can be found at

The CyVerse UK node hardware and software environment has been set up and deployed by the core CyVerse UK team (Erik van den Bergh and Alice Minotto) in the Davey Group, Tim Stitt (Scientific Computing), and NBI Scientific Computing. The CyVerse UK project is a BBSRC-funded collaboration between the EI, University of Warwick, University of Nottingham, and the University of Liverpool.

Source – Cambridge Network

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