24 March 2012 | Iain Milne, Gordon Stephen, Micha Bayer, Peter J.A. Cock, Leighton Pritchard, Linda Cardle, Paul D. Shaw and David Marshall
The article discusses the challenges and solutions in visualizing second-generation sequencing (2GS) data, highlighting the role of Tablet, a high-performance graphical viewer. Tablet addresses the issues posed by large data volumes, short read lengths, and diverse data formats associated with 2GS technologies. It supports various file formats such as ACE, AFG, MAQ, SOAP, SAM, and BAM, and provides features like whole-reference coverage overviews, variant highlighting, paired-end read marking, GFF3-based feature tracks, and protein translations. The article details Tablet's implementation techniques, including memory and disk-based strategies, optimization methods, and multi-core processing. It also showcases Tablet's applications in quality assurance and scientific discovery, such as visual validation of SNPs, transcriptome data analysis, and gene structure elucidation. Future developments aim to enhance read data visualization, improve GFF3 support, and extend paired-end visualization to other formats. Tablet is freely available for download and can be contacted for further details.The article discusses the challenges and solutions in visualizing second-generation sequencing (2GS) data, highlighting the role of Tablet, a high-performance graphical viewer. Tablet addresses the issues posed by large data volumes, short read lengths, and diverse data formats associated with 2GS technologies. It supports various file formats such as ACE, AFG, MAQ, SOAP, SAM, and BAM, and provides features like whole-reference coverage overviews, variant highlighting, paired-end read marking, GFF3-based feature tracks, and protein translations. The article details Tablet's implementation techniques, including memory and disk-based strategies, optimization methods, and multi-core processing. It also showcases Tablet's applications in quality assurance and scientific discovery, such as visual validation of SNPs, transcriptome data analysis, and gene structure elucidation. Future developments aim to enhance read data visualization, improve GFF3 support, and extend paired-end visualization to other formats. Tablet is freely available for download and can be contacted for further details.