Alview: Portable Software for Viewing Sequence Reads in BAM Formatted Files

Richard P. Finney, Qing-Rong Chen, Cu V. Nguyen, Chih Hao Hsu, Chunhua Yan, Ying Hu, Massih Abawi, Xiaopeng Bian, Daoud M. Meerzaman
2015 Cancer Informatics  
The name Alview is a contraction of the term Alignment Viewer. Alview is a compiled to native architecture software tool for visualizing the alignment of sequencing data. Inputs are files of short-read sequences aligned to a reference genome in the SAM/BAM format and files containing reference genome data. Outputs are visualizations of these aligned short reads. Alview is written in portable C with optional graphical user interface (GUI) code written in C, C++, and Objective-C. The application
more » ... an run in three different ways: as a web server, as a command line tool, or as a native, GUI program. Alview is compatible with Microsoft Windows, Linux, and Apple OS X. It is available as a web demo at https://cgwb.nci.nih.gov/cgi-bin/alview. The source code and Windows/Mac/Linux executables are available via https://github.com/NCIP/alview. CitAtion: finney et al. alview: Portable software for Viewing sequence reads in Bam formatted files.
doi:10.4137/cin.s26470 pmid:26417198 pmcid:PMC4573065 fatcat:wffmtoymn5bgnbxhqmp6gamsqm