Plant & Animal Genomes XIII Conference

January 15-19, 2005
Town & Country Convention Center
San Diego, CA

LUCY2: An Interactive DNA Sequence Quality Trimming And Vector Removal Tool

Song Li¹ , Hui-Hsien Chou^1,2

¹  Department of Computer Science, Iowa State University, Ames, IA, 50011, US

²  Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, US

Most DNA sequence processing software depend on reliable input data. To ensure this, a quality assurance and trimming tool LUCY was previously created to find bad quality and vector contaminated regions in raw DNA sequences coming from automatic DNA sequencing machines (Chou and Holmes, 2001). LUCY was quite successful working as an automatic filter in the data processing stream of large genome sequencing centers. However, for those individuals who just want to trim a few sequences, it is not convenient to work directly with LUCY. To make LUCY more user-friendly especially for nonprogrammers, we have created a graphical user interface (GUI) based LUCY2. LUCY2 provides an easy-to-use interface where users can edit parameters and perform computations easily and the results can be visualized almost instantly. In addition to all LUCY functionalities, LUCY2 also allows users to load multiple data files and permanently remove low-quality regions. LUCY2 is an open source project, and its pre-compiled executables on Windows, Linux and MacOS X can be downloaded from our website at http://www.complex.iastate.edu.
LUCY2 is supported by the NIH grant 4R33GM066400.