Bandage: interactive visualization of de novo genome assemblies | Zendy

Ryan R. Wick | Zendy; Mark B. Schultz | Zendy; Justin Zobel | Zendy; Kathryn E. Holt | Zendy

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Bandage: interactive visualization of de novo genome assemblies

Author(s) -

Ryan R. Wick,

Mark B. Schultz,

Justin Zobel,

Kathryn E. Holt

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv383

Subject(s) - contig , computer science , bandage , source code , visualization , graph , zoom , feature (linguistics) , sequence assembly , software , graphical user interface , programming language , theoretical computer science , genome , data mining , biology , medicine , paleontology , linguistics , philosophy , gene expression , surgery , transcriptome , lens (geology) , gene , biochemistry

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.

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