Getting poster data...
Petri Klemelä (CSC, The IT Center for Science, Espoo, Finland)The ability to view mapped sequence reads in their genomic context greatly benefits the data analysis of several next generation sequencing applications such as ChIP-seq and mRNA-seq. As an emerging technology the demands of NGS data visualisation can change in a rapid pace, and there is a need for tools that are flexible and can be easily deployed in different use cases. We have developed an open source visualizer with Java. It can be used for visualising large sets of mapped genomic regions against an annotated genome and, importantly, it allows zooming down to sequence level. The browser can be used as a standalone application or integrated into a larger system. It is designed in a modular way and exposes API for accessing and extending the browser. Large datasets are not loaded into memory, but instead the data access layer uses random file access to read detailed data and to do sampling for efficient generation of large scale data views. The user interface development has been usability oriented and the interface relies on common conventions for zooming and navigating. We hope that the genome browser Java component will be a useful part of many use cases and tool integration