Assembly Graph Browser: interactive visualization of assembly graphs | Zendy

Alla Mikheenko | Zendy; Mikhail Kolmogorov | Zendy

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Assembly Graph Browser: interactive visualization of assembly graphs

Author(s) -

Alla Mikheenko,

Mikhail Kolmogorov

Publication year - 2019

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/btz072

Subject(s) - visualization , computer science , graph drawing , graph layout , contig , interactive visualization , graph , sequence assembly , theoretical computer science , genome , data mining , biology , biochemistry , gene expression , transcriptome , gene

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.

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