title: Bandage: interactive visualization of de novo genome assemblies.
abstract: Although de novo assembly graphs contain assembled contigs (nodes), the connections between those contigs (edges) are difficult for users to access. Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for visualizing assembly graphs with connections. Users can zoom in to specific areas of the graph and interact with it by moving nodes, adding labels, changing colors and extracting sequences. BLAST searches can be performed within the Bandage graphical user interface and the hits are displayed as highlights in the graph. By displaying connections between contigs, Bandage presents new possibilities for analyzing de novo assemblies that are not possible through investigation of contigs alone.
  
  
  METHODS
  Source code and binaries are freely available at https://github.com/rrwick/Bandage. Bandage is implemented in C++ and supported on Linux, OS X and Windows. A full feature list and screenshots are available at http://rrwick.github.io/Bandage.
  
  
  BACKGROUND
  rrwick@gmail.com
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne and.
authors.forename: Ryan R
authors.initials: RR
authors.lastname: Wick
authors.affiliation: Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne and.
authors.forename: Mark B
authors.initials: MB
authors.lastname: Schultz
authors.affiliation: Department of Computing and Information Systems, University of Melbourne, Parkville, Victoria, Australia.
authors.forename: Justin
authors.initials: J
authors.lastname: Zobel
authors.affiliation: Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne and.
authors.forename: Kathryn E
authors.initials: KE
authors.lastname: Holt
mesh_terms: D002874:Chromosome Mapping; D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D016680:Genome, Bacterial; D015894:Genome, Human; D023281:Genomics / Q000379:methods; D006801:Humans; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software