Abstract 63: Alview (ALignment VIEWer): A software tool to visualize next generation sequencing (NGS) data

Abstract

Abstract Widespread use of NGS has led to the increasing sizes of high throughput sequencing data of various types from different platforms. Review of alignment data by experienced genomics researchers is an important quality control element in this process. Key to this activity is visual inspection of the sequencing data in order to eliminate false positives and document the likelihood of true positives. Furthermore, such manual, or visual, examination of data must occur at extremely rapid speeds. Alview (for “ALignment VIEWer”) is a compiled to native architecture software tool for visualizing the alignment of sequencing data. The inputs data are in the SAM/BAM format short read sequences that are aligned to a reference genome sequence. Outputs are images’ representing these short reads aligned to the reference genome. Alview is written in portable C with optional Graphical User Interface (GUI) code written in C,C++ or Objective C. Alview can be compiled to run in three different ways: (1) as a webserver, (2) as a command line tool, or (3) Alview is executable as a native graphical user interface. Alview is compatible with Microsoft Windows, Linux, and Apple OS X. Our new tool saves time and addresses specific regions of interest (for example, regions containing known or novel mutations or SNPS) and peruses these regions in the manner of a “slideshow”, enabling the scanning of a large number of samples in a short time Citation Format: Daoud Meerzaman, Richard Finney, Qing-Rong Chen, Cu Nguyen, Chih Hao Hsu, Barbra Dunn. Alview (ALignment VIEWer): A software tool to visualize next generation sequencing (NGS) data. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 63. doi:10.1158/1538-7445.AM2015-63