Abstract
Abstract Finishing is the most time-consuming step in sequenc-ing, and many genome projects are left unfinished due to complex repeat regions. Here, we have developed BACContigEditor, a prototype shotgun sequence finish-ing tool. It is essentially an editor that visualizes assem-blies of shotgun sequence fragment reads as gapped multiple alignments. The program offers some flexibility that is needed to rapidly resolve complex regions within a working session. The sole purpose of the release is to promote collaborative creation of extensible software for fragment assembly editors, foster collaborative develop-ment, and reduce barriers to initial tool development effort. We describe our software architecture and identi-fy current challenges. The program is available under an Open Source license. Availability: BACContigEditor is a public domain soft-ware. The software is a pre-alpha release and provides only basic fragment assembly editing features. You may download this program from the source (http://www. sourceforge.net/BACContigEditor/) for use on your computer. A documented API makes adding new algo-rithms, visualization modes, and sequence features easy.Keywords: fragment assembly, genome sequencing, whole genome fragment assembly
Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
