SinicView: An Interactive Visualization Tool for Comparison of Multiple Sequence Alignment Results

In the initial stage of sequence analysis, a biologist is first faced with the questions about how to choose the best tool to align sequences of interest and how to analyze and visualize the alignment results, and then with the question about whether unaligned regions produced by the tool are indeed not homologous or are just results due to inappropriate alignment tools or scoring systems used. In this paper, we present a versatile alignment visualization system, called SinicView, (for Sequence-aligningINnovative and Interactive Comparison VIEWer), which allows users to efficiently compare and evaluate assorted alignment results obtained by different tools. SinicView calculates similarity of the alignment outputs under a sliding window using the sum-of-pairs method and provides scoring profiles of each set of aligned sequences. Combined with the annotations information, the user can visually compare alignment results either in graphic scoring profiles or in plain text format of th...

• Type: Conference
• Year: 2005
• Where: CSB
• Authors: Arthur Chun-Chieh Shih, D. T. Lee, Laurent Lin, Chin-Lin Peng, Shiang-Heng Chen, Chun-Yi Wong, Meng-Yuan Chou, Tze-Chang Shiao
• Keywords: Alignment Tools, Bioinformatics, CSB 2005, Inappropriate Alignment Tools, Versatile Alignment Visualization