Assembly Graph Browser: interactive visualization of assembly graphs

Abstract Summary Currently, most genome assembly projects focus on contigs and scaffolds rather than assembly graphs that provide a more comprehensive representation of an assembly. Since interactive visualization of large assembly graphs remains an open problem, we developed an Assembly Graph Brows...

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Bibliographic Details
Published inBioinformatics Vol. 35; no. 18; pp. 3476 - 3478
Main Authors Mikheenko, Alla, Kolmogorov, Mikhail
Format Journal Article
LanguageEnglish
Published England Oxford University Press 15.09.2019
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Summary:Abstract Summary Currently, most genome assembly projects focus on contigs and scaffolds rather than assembly graphs that provide a more comprehensive representation of an assembly. Since interactive visualization of large assembly graphs remains an open problem, we developed an Assembly Graph Browser (AGB) tool that visualizes large assembly graphs, extending the functionality of previously developed visualization approaches. Assembly Graph Browser includes a number of novel functions including repeat analysis, construction of the contracted assembly graphs (i.e. the graphs obtained by collapsing a selected set of edges) and a new approach to visualizing large assembly graphs. Availability and implementation http://www.github.com/almiheenko/AGB. Supplementary information Supplementary data are available at Bioinformatics online.
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ISSN:1367-4803
1367-4811
1460-2059
1367-4811
DOI:10.1093/bioinformatics/btz072