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

Richard P. Finney | Zendy; Qingrong Chen | Zendy; Cu Nguyen | Zendy; Chih Hao Hsu | Zendy; Chunhua Yan | Zendy; Ying Hu | Zendy; Massih Abawi | Zendy; Xiaopeng Bian | Zendy; Daoud Meerzaman | Zendy

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

Author(s) -

Richard P. Finney,

Qingrong Chen,

Cu Nguyen,

Chih Hao Hsu,

Chunhua Yan,

Ying Hu,

Massih Abawi,

Xiaopeng Bian,

Daoud Meerzaman

Publication year - 2015

Publication title -

cancer informatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.606

H-Index - 31

ISSN - 1176-9351

DOI - 10.4137/cin.s26470

Subject(s) - computer science , executable , software , operating system , graphical user interface , os x , plug in , microsoft windows , source code , programming language , world wide web

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 can 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.

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