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Anil S. Thanki, Xindong Bian, Robert P. Davey (The Genome Analysis Centre, Norwich Research Park, Norwich, UK)
We present the TGAC Browser with novel rendering, annotation and analysis capabilities designed to overcome the shortcomings in available approaches. TGAC Browser, being a web-based client, utilises JavaScript libraries to provide a fast and intuitive genome browsing experience. We focus on harnessing Internet architectures as well as localised HPC hardware, concentrating on improved, more productive interfaces and analytical capabilities. TGAC Browser processes and visualises data directly from the Ensembl core schema as well as next-generation sequencing (NGS) data output, i.e. BAM/SAM, BigWig/wig, GFF, VCF. TGAC Browser visualises genomic data in different ways, based on the type and amount of data, which is more informative to the user and memory efficient. Heavyweight analysis tasks can be initiated via a dedicated extensible Java daemon running on a server or HPC, allowing tools like BLAST to be run and later rendering of the output directly in the browser. Users can add and edit annotations, which can be persisted on the server, reloaded, and shared at a later date. The only prerequisites for TGAC Browser are a web application container like Tomcat and an Ensembl database.